Citrus Sinensis ID: 020531

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-----
Protein Sequence
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW
Secondary Structure (PSIPRED)
ccEEEEEEEcHHHHHHHHHccccccccccccccccccccccccEEccccccccccccccccccccccccHHHHHHccccccccHHHcHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEcccccccccccccEEEEEEccccccccccccEEEEccccccccccccccccEEEEEEEccccEEEEEccEEEEccEEccccccccccccccccEEEccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEEEEcHHHHHHHHHHHcccEEcccccccHHHHHccccccccccccccccccccccccccHHHHHccHHHHHccccccccHHHHHHHHHHcccccccccHccccccccccccHHcHHHHcccccccccccccccccccccccccccccccccHHHHHccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccEccccccccccccccEEEEEEEEEEEcccccccEEEEcccHHHHHcccccccHEEEEEEEccccEEEEEccEEEEccEEccccccccccccccccEEcccccEEEEccccccccccccc
Coil and Loop (DISEMBL)
MALRVTVNFSGYVAQNlahsagirfgfsttstrsfheclfrprvfchskktdldpppnyqpkanyrCNTLAAeifgdgacnspILMGLVSLMkstagmpgpsatsmgvfgispfkaasiipflqgskwlpcnepgtvpesdyvdkggttdkiqfsgsenlngvSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSflaeprsipsasmnptldvgDRILAEKVSYffkrpevsdivifrappilqeigfssGDVFIKRIVAtagdcvevhggkllvngvaqdedfileplayemdpvvvpegyvfvlgdnrnnsfdshnw
Flexible Loop (DISEMBL)
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFchskktdldpppnYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQfsgsenlngVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAeprsipsasmnptlDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGdnrnnsfdshnw
Low Complexity Region (SEG)
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW
Disordered region (IsUnstruct)
************************************ECLFRPRVFCHS*************KANYRCNTLAAEIFGDGACNSPILMGLVSLMKS**********SMGVFGISPFKAASIIPFLQGSKWLPCNEPGT***********************LNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEP*********PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGD***********
Disordered Region (DISOPRED)
*ALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRV************************************************************************ASIIPFLQGS*****************************************************VCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNN*****NW
Disordered Region (DISEMBL)
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW
Disordered Region (DISPRO)
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDL*PPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTA*MPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEP***************************************LSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRN********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	325	2.2.26 [Sep-21-2011]
Q9M9Z2	367	Probable thylakoidal proc	yes	no	0.96	0.850	0.547	2e-92
O04348	340	Thylakoidal processing pe	no	no	0.913	0.873	0.557	1e-89
Q8H0W1	291	Chloroplast processing pe	no	no	0.492	0.549	0.6	4e-54
P72660	196	Probable signal peptidase	N/A	no	0.390	0.647	0.527	3e-32
P73157	218	Probable signal peptidase	N/A	no	0.446	0.665	0.455	8e-30
Q51876	203	Signal peptidase I OS=Pho	N/A	no	0.430	0.689	0.421	9e-28
O33021	289	Probable signal peptidase	yes	no	0.504	0.567	0.305	3e-16
Q10789	294	Signal peptidase I OS=Myc	yes	no	0.424	0.469	0.344	3e-16
Q9I5G7	284	Signal peptidase I OS=Pse	no	no	0.409	0.468	0.316	1e-13
P41025	193	Signal peptidase I OS=Bac	yes	no	0.464	0.782	0.313	1e-13

>sp|Q9M9Z2|TPP2_ARATH Probable thylakoidal processing peptidase 2, chloroplastic OS=Arabidopsis thaliana GN=TPP2 PE=2 SV=1

 Score =  339 bits (869), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 186/340 (54%), Positives = 235/340 (69%), Gaps = 28/340 (8%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDL-DPPP-- 57
           MA+RVT  +S YVA+++A SAG R G  T   RS  E   RPR   H++  D+ D  P  
Sbjct: 1   MAIRVTFTYSSYVARSIASSAGTRVG--TGDVRSCFETWVRPRFCGHNQIPDIVDKSPGS 58

Query: 58  -NYQPKANYRC-------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVF 109
             + P +  R        +T+A EI  +G C SP+++G++SLM  T     P  + M   
Sbjct: 59  NTWGPSSGPRARPASSMYSTIAREILEEG-CKSPLVLGMISLMNLTGA---PQFSGMTGL 114

Query: 110 GISPFKAASIIPFLQGSKWLPCNEPGTVP-ESDYVDKGGTT--DKIQFSGSENL-NGVSL 165
           GISPFK +S+IPFL+GSKW+PC+ P T+  +   VD+GG     K++   S+ + NG   
Sbjct: 115 GISPFKTSSVIPFLRGSKWMPCSIPATLSTDIAEVDRGGKVCDPKVKLELSDKVSNG--- 171

Query: 166 QLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILA 225
                  W++KLLN+CS+DAKAAFTA+TVS LF+S LAEP+SIPS SM PTLDVGDR++A
Sbjct: 172 ----GNGWVNKLLNICSEDAKAAFTAVTVSLLFRSALAEPKSIPSTSMLPTLDVGDRVIA 227

Query: 226 EKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVA 285
           EKVSYFF++PEVSDIVIF+APPIL E G+S  DVFIKRIVA+ GD VEV  GKLLVN   
Sbjct: 228 EKVSYFFRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVNDTV 287

Query: 286 QDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           Q EDF+LEP+ YEM+P+ VPEGYVFVLGDNRN SFDSHNW
Sbjct: 288 QAEDFVLEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNW 327

Cleaves the thylakoid-transfer domain from a chloroplast protein.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 4EC: .EC: 2EC: 1EC: .EC: 8EC: 9

>sp|O04348|TPP1_ARATH Thylakoidal processing peptidase 1, chloroplastic OS=Arabidopsis thaliana GN=TPP1 PE=2 SV=2

 Score =  329 bits (844), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 183/328 (55%), Positives = 229/328 (69%), Gaps = 31/328 (9%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQ 60
           MA+R+T  +S +VA+NL    G R G          E L RPR F H  K D D  P  +
Sbjct: 1   MAIRITFTYSTHVARNLV---GTRVGPGGYC----FESLVRPRFFSH--KRDFDRSPRNR 51

Query: 61  PKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASII 120
           P + Y   ++A E+ G+G+  SP++MGL+S++KST G     +++M V G+S FKA+SII
Sbjct: 52  PASMY--GSIARELIGEGS-QSPLVMGLISILKSTTGH---ESSTMNVLGVSSFKASSII 105

Query: 121 PFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNV 180
           PFLQGSKW+        P  D VDKGGT         E+ NG S        W++KLL+V
Sbjct: 106 PFLQGSKWI-----KNPPVIDDVDKGGTVCDDD-DDKESRNGGS-------GWVNKLLSV 152

Query: 181 CSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDI 240
           CS+DAKAAFTA+TVS LF+S LAEP+SIPS SM PTLD GDR++AEKVSYFF++PEVSDI
Sbjct: 153 CSEDAKAAFTAVTVSILFRSALAEPKSIPSTSMYPTLDKGDRVMAEKVSYFFRKPEVSDI 212

Query: 241 VIFRAPPIL---QEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAY 297
           VIF+APPIL    E G+SS DVFIKRIVA+ GD VEV  GKL VN + Q+EDF+LEP++Y
Sbjct: 213 VIFKAPPILLEYPEYGYSSNDVFIKRIVASEGDWVEVRDGKLFVNDIVQEEDFVLEPMSY 272

Query: 298 EMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           EM+P+ VP+GYVFVLGDNRN SFDSHNW
Sbjct: 273 EMEPMFVPKGYVFVLGDNRNKSFDSHNW 300

Cleaves the thylakoid-transfer domain from a chloroplast protein.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q8H0W1|PLSP1_ARATH Chloroplast processing peptidase OS=Arabidopsis thaliana GN=PLSP1 PE=2 SV=2

 Score =  211 bits (538), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 96/160 (60%), Positives = 123/160 (76%)

Query: 166 QLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILA 225
           +++       + L+  SDDA+  F A+ VS  F+ F+AEPR IPS SM PT DVGDR++A
Sbjct: 96  EVEEKNRLFPEWLDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPTFDVGDRLVA 155

Query: 226 EKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVA 285
           EKVSY+F++P  +DIVIF++PP+LQE+G++  DVFIKRIVA  GD VEVH GKL+VNGVA
Sbjct: 156 EKVSYYFRKPCANDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHNGKLMVNGVA 215

Query: 286 QDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           ++E FILEP  YEM P+ VPE  VFV+GDNRNNS+DSH W
Sbjct: 216 RNEKFILEPPGYEMTPIRVPENSVFVMGDNRNNSYDSHVW 255

Involved in the maturation of the plastid protein translocation channel. Required for the biogenesis of plastid internal membranes. May also function as a thylakoidal processing peptidase.

Arabidopsis thaliana (taxid: 3702)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P72660|LEP1_SYNY3 Probable signal peptidase I-1 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=lepB1 PE=3 SV=1

 Score =  139 bits (350), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 67/127 (52%), Positives = 87/127 (68%)

Query: 199 KSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGD 258
           + F+AEPR IPS SM PTL+ GDR++ EKVSY F  P+V DI++F  P +LQ  G+  G 
Sbjct: 31  RFFVAEPRYIPSDSMLPTLEQGDRLVVEKVSYHFHPPQVGDIIVFHPPELLQVQGYDLGQ 90

Query: 259 VFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNN 318
            FIKR++A  G  VEV+ G +  +G    E++ILEP  Y +  V VP+G VFV+GDNRNN
Sbjct: 91  AFIKRVIALPGQTVEVNNGIVYRDGQPLQEEYILEPPQYNLPAVRVPDGQVFVMGDNRNN 150

Query: 319 SFDSHNW 325
           S DSH W
Sbjct: 151 SNDSHVW 157

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P73157|LEP2_SYNY3 Probable signal peptidase I-2 OS=Synechocystis sp. (strain PCC 6803 / Kazusa) GN=lepB2 PE=3 SV=1

 Score =  131 bits (329), Expect = 8e-30,   Method: Compositional matrix adjust.
 Identities = 67/147 (45%), Positives = 89/147 (60%), Gaps = 2/147 (1%)

Query: 179 NVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVS 238
           N   +  K   TA+ ++   ++F+AE R IPS+SM PTL + DR++ EK+SY  + PE  
Sbjct: 19  NTWLELGKTMVTAVILAIGIRTFVAEARYIPSSSMEPTLQINDRLIIEKISYRLRDPERG 78

Query: 239 DIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYE 298
           +IV+F     L+   F   D FIKRI+   GD V V  G + VNG   DE++I  P AYE
Sbjct: 79  EIVVFNPTDALKAKNFH--DAFIKRIIGLPGDEVRVSQGNVYVNGKMLDENYIAAPPAYE 136

Query: 299 MDPVVVPEGYVFVLGDNRNNSFDSHNW 325
             PV VP+    VLGDNRNNS+DSH W
Sbjct: 137 YGPVKVPDDQYLVLGDNRNNSYDSHYW 163

Synechocystis sp. (strain PCC 6803 / Kazusa) (taxid: 1111708)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q51876|LEP_PHOLA Signal peptidase I OS=Phormidium laminosum GN=lepB PE=3 SV=1

 Score =  124 bits (311), Expect = 9e-28,   Method: Compositional matrix adjust.
 Identities = 59/140 (42%), Positives = 87/140 (62%)

Query: 186 KAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRA 245
           K    ++ ++   ++F+AE R IPS SM PTL+V DR++ EK+SY F  P   DI++F  
Sbjct: 33  KTIGLSVVLALGIRTFVAEARYIPSESMLPTLEVNDRLIVEKISYHFNPPRRGDIIVFHP 92

Query: 246 PPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVP 305
              L++   S  + FIKR++   G+ V+V GG++L+NG   +E++I  P  Y+  P  VP
Sbjct: 93  TEALKQQNPSLNEAFIKRVIGLPGETVQVTGGRVLINGQPLEENYIQSPPDYQWGPEKVP 152

Query: 306 EGYVFVLGDNRNNSFDSHNW 325
                VLGDNRNNS+DSH W
Sbjct: 153 ADSFLVLGDNRNNSYDSHFW 172

Phormidium laminosum (taxid: 32059)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|O33021|LEP_MYCLE Probable signal peptidase I OS=Mycobacterium leprae (strain TN) GN=lepB PE=3 SV=1

 Score = 86.3 bits (212), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 65/213 (30%), Positives = 96/213 (45%), Gaps = 49/213 (23%)

Query: 151 KIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPS 210
           ++  + +E   GVS   K S  W   +L         A  A+ + ++  +F+A P  IPS
Sbjct: 32  EVSETAAEAAIGVSEPKKRSALWEFAIL---------AVIAIGLYYVMLTFVARPYLIPS 82

Query: 211 ASMNPTLD-----VGDRILAEKVSYFFKRPEVSDIVIFRAPP------------------ 247
            SM PTL      VGDRI+ +K++Y F  P+  D+++F+ PP                  
Sbjct: 83  ESMEPTLHGCSGCVGDRIMVDKITYRFSSPQPGDVIVFKGPPSWNTMYKSIRSNNIVLRS 142

Query: 248 ---ILQEIGFSSGDV--FIKRIVATAGDCVEVHGGK-LLVNG----------VAQDEDFI 291
               L  +GF   D    +KR++A  G  V+      L VNG          V  + D  
Sbjct: 143 VQNALSFVGFVPPDENDLVKRVIAVGGQTVQCRSDTGLTVNGKPLKEPYLRPVTMNADLS 202

Query: 292 LEP-LAYEMDPVVVPEGYVFVLGDNRNNSFDSH 323
             P L  E  PV VP+G ++V+GDNR +S DS 
Sbjct: 203 FSPCLGSEFGPVTVPQGRLWVMGDNRIHSADSR 235

Mycobacterium leprae (taxid: 1769)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q10789|LEP_MYCTU Signal peptidase I OS=Mycobacterium tuberculosis GN=lepB PE=1 SV=1

 Score = 85.9 bits (211), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 62/180 (34%), Positives = 84/180 (46%), Gaps = 42/180 (23%)

Query: 185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLD-----VGDRILAEKVSYFFKRPEVSD 239
           A  A  A+ + ++  +F+A P  IPS SM PTL      VGDRI+ +K+SY F  P+  D
Sbjct: 69  AVLAVIAVVLYYVMLTFVARPYLIPSESMEPTLHGCSTCVGDRIMVDKLSYRFGSPQPGD 128

Query: 240 IVIFRAPP---------------------ILQEIGFSSGDV--FIKRIVATAGDCVEVHG 276
           +++FR PP                      L  IGF   D    +KR++A  G  V+   
Sbjct: 129 VIVFRGPPSWNVGYKSIRSHNVAVRWVQNALSFIGFVPPDENDLVKRVIAVGGQTVQCRS 188

Query: 277 GK-LLVNGVAQDEDFILEP------------LAYEMDPVVVPEGYVFVLGDNRNNSFDSH 323
              L VNG    E + L+P            L  E  PV VP G V+V+GDNR +S DS 
Sbjct: 189 DTGLTVNGRPLKEPY-LDPATMMADPSIYPCLGSEFGPVTVPPGRVWVMGDNRTHSADSR 247

Mycobacterium tuberculosis (taxid: 1773)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|Q9I5G7|LEP_PSEAE Signal peptidase I OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=lepB PE=3 SV=1

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 58/183 (31%), Positives = 84/183 (45%), Gaps = 50/183 (27%)

Query: 185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFK----------- 233
            K+ F  L +  + +SFL EP  IPS SM PTL+VGD IL  K +Y  +           
Sbjct: 63  GKSFFPVLFIVLVLRSFLVEPFQIPSGSMKPTLEVGDFILVNKFAYGIRLPVLDTKVIPI 122

Query: 234 -RPEVSDIVIFRAPPILQEIGFSSGDV-FIKRIVATAGDCVEVHGGK-LLVNG------- 283
             P+  D+++FR P        S  ++ +IKR+V   GD V     K L VNG       
Sbjct: 123 GDPQRGDVMVFRYP--------SEPNINYIKRVVGLPGDTVRYTKEKRLYVNGELVAEKL 174

Query: 284 -----------------VAQDEDFILEPLA-YEMDP---VVVPEGYVFVLGDNRNNSFDS 322
                            + Q E  I + ++ Y ++P     +P G+ F++GDNR+NS DS
Sbjct: 175 VGEEPGTLGSVTLYQEKLGQAEHLIRKEMSRYRIEPDRQWTIPAGHYFMMGDNRDNSNDS 234

Query: 323 HNW 325
             W
Sbjct: 235 RYW 237

Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) (taxid: 208964)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

>sp|P41025|LEP2_BACAM Signal peptidase I OS=Bacillus amyloliquefaciens GN=sipS2 PE=3 SV=1

 Score = 77.4 bits (189), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 53/169 (31%), Positives = 78/169 (46%), Gaps = 18/169 (10%)

Query: 166 QLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILA 225
           Q  TS   + +  N   +  KA   A+ ++ L + FL EP  +  +SM PTL  G+R+  
Sbjct: 5   QKPTSEKSVKRKSNTYWEWGKAIIIAVALALLIRHFLFEPYLVEGSSMYPTLHDGERLFV 64

Query: 226 EKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVA 285
            K   +    E  DIVI          G +S   ++KR++   G+ VE+    L +NG  
Sbjct: 65  NKSVNYIGEIERGDIVIIN--------GDTSKVHYVKRLIGKPGETVEMKNDTLYINGKK 116

Query: 286 QDEDFILE----------PLAYEMDPVVVPEGYVFVLGDNRNNSFDSHN 324
             E ++             L  +  PV VP+G  FV+GDNR NS DS N
Sbjct: 117 IAEPYLASNKKEAKKLGVNLTGDFGPVKVPKGKYFVMGDNRLNSMDSRN 165

Bacillus amyloliquefaciens (taxid: 1390)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 1

EC: .

EC: 8

EC: 9

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	325
225458489	368	PREDICTED: probable thylakoidal processi	0.963	0.850	0.636	1e-112
356510334	362	PREDICTED: probable thylakoidal processi	0.950	0.853	0.608	1e-108
356519126	362	PREDICTED: probable thylakoidal processi	0.953	0.856	0.610	1e-107
255538440	831	signal peptidase I, putative [Ricinus co	0.972	0.380	0.589	1e-105
449498740	763	PREDICTED: uncharacterized protein LOC10	0.978	0.416	0.608	1e-104
224136660	362	predicted protein [Populus trichocarpa]	0.938	0.842	0.605	1e-102
449447223	761	PREDICTED: uncharacterized protein LOC10	0.963	0.411	0.608	1e-101
357465373	334	Thylakoidal processing peptidase [Medica	0.978	0.952	0.574	1e-101
357465371	375	Thylakoidal processing peptidase [Medica	0.978	0.848	0.574	1e-101
15222236	367	signal peptidase I [Arabidopsis thaliana	0.96	0.850	0.547	1e-90

>gi|225458489|ref|XP_002284120.1| PREDICTED: probable thylakoidal processing peptidase 2, chloroplastic [Vitis vinifera] gi|147810057|emb|CAN78280.1| hypothetical protein VITISV_021649 [Vitis vinifera]

 Score =  410 bits (1054), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 217/341 (63%), Positives = 259/341 (75%), Gaps = 28/341 (8%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPP-PNY 59
           MA+++TV +SGYVAQNLA SAGIR G    + RS HEC  R R FC S+K ++D P P+ 
Sbjct: 1   MAIKLTVTYSGYVAQNLASSAGIRVG----NCRSIHECWVRSRFFCPSQKPEVDSPVPSR 56

Query: 60  QPKANYR-----C---------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATS 105
             +A+YR     C         +TLA E+FGD +C +P+++GL+SLMKS+ G+   S +S
Sbjct: 57  AYQADYRRPKANCWAKVSTSAYSTLAGEVFGD-SCRNPLIVGLISLMKSSTGV---SESS 112

Query: 106 MGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNG-VS 164
           +GVFG+SP KA SI+PFL GSKWLPCNEP      D VDKGGT    Q    E ++  + 
Sbjct: 113 VGVFGVSPLKATSILPFLPGSKWLPCNEPIQGSVGDEVDKGGT----QCCDVEVISKPLD 168

Query: 165 LQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRIL 224
            ++    +WLSKLLN CS+DA+A FTA+TVS LF+S LAEPRSIPSASM PTLDVGDRIL
Sbjct: 169 RKVLERSNWLSKLLNCCSEDARAVFTAVTVSLLFRSPLAEPRSIPSASMYPTLDVGDRIL 228

Query: 225 AEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284
           AEKVSY F+ PEVSDIVIF+ PPILQEIG+S+GDVFIKRIVA AGD VEV  GKL+VNGV
Sbjct: 229 AEKVSYVFRNPEVSDIVIFKVPPILQEIGYSAGDVFIKRIVAKAGDYVEVSEGKLMVNGV 288

Query: 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           AQ+EDFILEPLAY MDPV+VPEGYVFVLGDNRNNSFDSHNW
Sbjct: 289 AQEEDFILEPLAYNMDPVLVPEGYVFVLGDNRNNSFDSHNW 329

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356510334|ref|XP_003523894.1| PREDICTED: probable thylakoidal processing peptidase 2, chloroplastic-like [Glycine max]

 Score =  397 bits (1019), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 205/337 (60%), Positives = 248/337 (73%), Gaps = 28/337 (8%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLD------ 54
           MA+RVT +FSGYVAQ+LA SAG+R      ++R   EC  R R+   ++KTDLD      
Sbjct: 1   MAIRVTFSFSGYVAQSLASSAGVRVA----NSRCVQECWIRTRLSGATQKTDLDSSAGGV 56

Query: 55  -----PPPNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVF 109
                P PN   ++ Y  +TL  E  GDG C SPI++GL+S+MKSTAG+ G SA + G+F
Sbjct: 57  RNFAGPKPNCWAQSTY--STLTGEFLGDG-CKSPIILGLISIMKSTAGVSGSSAAAAGIF 113

Query: 110 GISPFKAASIIPFLQGSKWLPCNEPGTVPESDY-VDKGGTTDKIQFSGSENLNGVSLQLK 168
           GISPFK  SI+PFL GSKWLPCNE    P + + VDKGGT   +  + S           
Sbjct: 114 GISPFKTTSIVPFLPGSKWLPCNESVPDPTTSWEVDKGGTRRVVSDTESNF--------- 164

Query: 169 TSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKV 228
              SWLS+L+NVCS+DAKAAFTA+TVS LFKS LAEPRSIPS+SM PTL+VGDR+L EKV
Sbjct: 165 AKTSWLSRLMNVCSEDAKAAFTAVTVSLLFKSSLAEPRSIPSSSMYPTLEVGDRVLTEKV 224

Query: 229 SYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDE 288
           S+FF++P+VSDIVIF+APP L+E GFSS DVFIKRIVA AGD VEV  GKLLVNG A++ 
Sbjct: 225 SFFFRKPDVSDIVIFKAPPCLEEFGFSSSDVFIKRIVAKAGDTVEVRDGKLLVNGAAEER 284

Query: 289 DFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
            F++EPLAYEMDP+VVPEGYVFV+GDNRNNSFDSHNW
Sbjct: 285 QFVVEPLAYEMDPMVVPEGYVFVMGDNRNNSFDSHNW 321

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356519126|ref|XP_003528225.1| PREDICTED: probable thylakoidal processing peptidase 2, chloroplastic-like [Glycine max]

 Score =  394 bits (1011), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 205/336 (61%), Positives = 248/336 (73%), Gaps = 26/336 (7%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFC-HSKKTDLDPP--- 56
           MA+RVT +FSGYVAQ+LA SAG+R      ++R   EC  R R+F   ++KTDLD     
Sbjct: 1   MAIRVTFSFSGYVAQSLASSAGVR----VANSRCVQECWIRTRLFGGATQKTDLDSSAGG 56

Query: 57  -------PNYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVF 109
                  PN   ++ Y  ++LA E  GDG   SPI++GL+S+MKST G+ G SA + G+F
Sbjct: 57  GVRNFARPNCWAQSTY--SSLAGEFLGDGCSKSPIILGLISIMKSTVGVSGSSAAAAGIF 114

Query: 110 GISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKT 169
           GISPFK  SIIPFL GSKWLPCNE    P S  VDKGGT   +  + S N   +S     
Sbjct: 115 GISPFKTTSIIPFLPGSKWLPCNESVPDPTSWEVDKGGTRRVVSETES-NFAKIS----- 168

Query: 170 SGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVS 229
              WLS+L+NVCS+DAKAAFTALTVS LFKS LAEPRSIPS+SM PTL+VGDR+L EKVS
Sbjct: 169 ---WLSRLMNVCSEDAKAAFTALTVSLLFKSSLAEPRSIPSSSMYPTLEVGDRVLTEKVS 225

Query: 230 YFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDED 289
           +FF++P+VSDIVIF+APP L+E GFSS DVFIKRIVA AGD VEV  GKLL+NG A++++
Sbjct: 226 FFFRKPDVSDIVIFKAPPWLEEFGFSSSDVFIKRIVAKAGDTVEVRDGKLLINGAAEEQE 285

Query: 290 FILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           F+LE LAYEMDP+VVPEGYVFV+GDNRN SFDSHNW
Sbjct: 286 FVLEALAYEMDPMVVPEGYVFVMGDNRNKSFDSHNW 321

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255538440|ref|XP_002510285.1| signal peptidase I, putative [Ricinus communis] gi|223550986|gb|EEF52472.1| signal peptidase I, putative [Ricinus communis]

 Score =  386 bits (991), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 211/358 (58%), Positives = 253/358 (70%), Gaps = 42/358 (11%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCH--SKKTDLDPPP- 57
           MA+RVT  +SGYVAQ++A  AGIR G    + RS HEC  R R+F    ++  DL+PP  
Sbjct: 1   MAIRVTFTYSGYVAQSIASCAGIRVG----NCRSLHECFVRSRIFASPTNQNVDLEPPAP 56

Query: 58  ---------NYQPKANYRCNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGV 108
                     Y+  +    +T+A EIFG+  C SPI +GL+ LMKSTAG+ G S  S GV
Sbjct: 57  RPSRVFQSGGYRKSSTSLYSTIAGEIFGNN-CKSPIAVGLIELMKSTAGV-GVSG-STGV 113

Query: 109 FGISPFKAASIIPFLQGSKWLPCNEPG---------TVPESDYVDKGGTTDKIQ------ 153
           FGISP KA+SI+P LQGS+WLPCNEP          T   S  VD+GGT   ++      
Sbjct: 114 FGISPLKASSILPVLQGSRWLPCNEPSPGQKNNEPSTRQNSSDVDRGGTVKCVKNGSSSS 173

Query: 154 ------FSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRS 207
                  + +  +NG   +L   GSWLS++L+  S+DAKA FTA TV+FLF+S LAEPRS
Sbjct: 174 CCTTATTTVTLEINGN--ELDKGGSWLSRVLSSFSEDAKAIFTAATVNFLFRSALAEPRS 231

Query: 208 IPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT 267
           IPS SM PTLDVGDR+LAEKVS+ F++PEVSDIVIF+APPILQEIG+SSGDVFIKRIVAT
Sbjct: 232 IPSTSMCPTLDVGDRVLAEKVSFIFRQPEVSDIVIFKAPPILQEIGYSSGDVFIKRIVAT 291

Query: 268 AGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           AGD VEV  GKL VNGV Q EDFILEPLAYEM+PV+VPEGYVFV+GDNRNNSFDSHNW
Sbjct: 292 AGDIVEVREGKLYVNGVIQHEDFILEPLAYEMEPVLVPEGYVFVMGDNRNNSFDSHNW 349

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449498740|ref|XP_004160620.1| PREDICTED: uncharacterized protein LOC101229456 [Cucumis sativus]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 207/340 (60%), Positives = 244/340 (71%), Gaps = 22/340 (6%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPP---P 57
           MA+RVTV+FSGYVAQNLA SAGIR G    + R+ HEC  R R+F  ++K + DP     
Sbjct: 1   MAIRVTVSFSGYVAQNLASSAGIRVG----NCRAVHECWIRSRLFGSNQKPEFDPSGSVR 56

Query: 58  NYQPK---ANYRC---------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATS 105
           NY      +N RC          T+A EI  D +C +PI++GL+SLMKS  G    S  +
Sbjct: 57  NYHSAVLPSNSRCWVKNSASALGTIAGEIV-DESCRNPIVLGLISLMKSAVGTSVSSPMA 115

Query: 106 MGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSL 165
           MGVFG+S F+A+SIIPFLQGSK +  NE  +    D ++  G  D +   G       S 
Sbjct: 116 MGVFGVSSFEASSIIPFLQGSKTVTGNESVSGSTGDEIESYGVFDCVMDEGMSQPPDPSK 175

Query: 166 QLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILA 225
             K+S  W+S+ LN CS+DAKA  TALTVS LF+S LAEPRSIPS+SM PTLDVGDRILA
Sbjct: 176 LEKSS--WISRFLNNCSEDAKAIATALTVSVLFRSSLAEPRSIPSSSMYPTLDVGDRILA 233

Query: 226 EKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVA 285
           EKVSYFF+RP VSDIVIF+APPILQ+IG+ S DVFIKRIVA AGDCVEV  GKLLVNGVA
Sbjct: 234 EKVSYFFRRPSVSDIVIFKAPPILQKIGYKSNDVFIKRIVAKAGDCVEVRDGKLLVNGVA 293

Query: 286 QDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           Q+E FILEPL+Y MDPV+VPEGYVFVLGDNRNNSFDSHNW
Sbjct: 294 QNEKFILEPLSYNMDPVLVPEGYVFVLGDNRNNSFDSHNW 333

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136660|ref|XP_002326914.1| predicted protein [Populus trichocarpa] gi|222835229|gb|EEE73664.1| predicted protein [Populus trichocarpa]

 Score =  376 bits (965), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 209/345 (60%), Positives = 242/345 (70%), Gaps = 40/345 (11%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCH------SKKTDLD 54
           MA+RVT +FSGYVAQNL    G+R G    + R  +EC  R R+F        +  +D++
Sbjct: 1   MAIRVTFSFSGYVAQNL----GVRVG----NCRYLNECFIRSRIFASPATTTTTHNSDIE 52

Query: 55  PP--------PNYQPKANYR-----CNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGP 101
           PP             K NY       +T+A EIFGD    S I +GLVSLMKSTAG+   
Sbjct: 53  PPGPRTGTDFRRRNLKRNYSNSAAMYSTMAGEIFGDNCKGSAIAVGLVSLMKSTAGV--- 109

Query: 102 SATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGT-TDKIQFSGSENL 160
           S ++MG  GISPFKA SI+PFLQGS+WLPCNE      S  VD+GGT T K     SE+ 
Sbjct: 110 SCSNMGACGISPFKAVSILPFLQGSRWLPCNEAVLGSRSPEVDRGGTGTVKSVEKVSES- 168

Query: 161 NGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVG 220
                    S SW S++ NVCS+DAKA FTA TVS LF+S LAEPRSIPS+SM+PTLDVG
Sbjct: 169 --------KSRSWFSRVFNVCSEDAKAMFTAATVSLLFRSTLAEPRSIPSSSMSPTLDVG 220

Query: 221 DRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLL 280
           DRILAEKVSY F++PEVSDIVIF+APPILQE GFSSGDVFIKRIVA AGD VEV  GKL 
Sbjct: 221 DRILAEKVSYVFRKPEVSDIVIFKAPPILQEFGFSSGDVFIKRIVAKAGDYVEVREGKLY 280

Query: 281 VNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           VNGV QDE+FI EPLAYEM+ V+VPEGYVFV+GDNRNNSFDSHNW
Sbjct: 281 VNGVVQDEEFIKEPLAYEMELVLVPEGYVFVMGDNRNNSFDSHNW 325

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449447223|ref|XP_004141368.1| PREDICTED: uncharacterized protein LOC101221060, partial [Cucumis sativus]

 Score =  374 bits (961), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 204/335 (60%), Positives = 241/335 (71%), Gaps = 22/335 (6%)

Query: 6   TVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPP---PNYQPK 62
           TV+FSGYVAQNLA SAGIR G    + R+ HEC  R R+F  ++K + DP     NY   
Sbjct: 1   TVSFSGYVAQNLASSAGIRVG----NCRAVHECWIRSRLFGSNQKPEFDPSGSVRNYHSA 56

Query: 63  ---ANYRC---------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVFG 110
              +N RC          T+A EI  D +C +PI++GL+SLMKS  G    S  +MGVFG
Sbjct: 57  VLPSNSRCWVKNSASALGTIAGEIV-DESCRNPIVLGLISLMKSAVGTSVSSPMAMGVFG 115

Query: 111 ISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQFSGSENLNGVSLQLKTS 170
           +S F+A+SIIPFLQGSK +  NE  +    D ++  G  D +   G       S +L+ S
Sbjct: 116 VSSFEASSIIPFLQGSKTVTGNESVSGSTGDEIESYGVFDCVMDEGMSQPPDPS-KLEKS 174

Query: 171 GSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSY 230
            SW+S+ LN CS+DAKA  TALTVS LF+S LAEPRSIPS+SM PTLDVGDRILAEKVSY
Sbjct: 175 -SWISRFLNNCSEDAKAIATALTVSVLFRSSLAEPRSIPSSSMYPTLDVGDRILAEKVSY 233

Query: 231 FFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDF 290
           FF+RP VSDIVIF+APPILQ+IG+ S DVFIKRIVA AGDCVEV  GKLLVNGVAQ+E F
Sbjct: 234 FFRRPSVSDIVIFKAPPILQKIGYKSNDVFIKRIVAKAGDCVEVRDGKLLVNGVAQNEKF 293

Query: 291 ILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           ILEPL+Y MDPV+VPEGYVFVLGDNRNNSFDSHNW
Sbjct: 294 ILEPLSYNMDPVLVPEGYVFVLGDNRNNSFDSHNW 328

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357465373|ref|XP_003602968.1| Thylakoidal processing peptidase [Medicago truncatula] gi|355492016|gb|AES73219.1| Thylakoidal processing peptidase [Medicago truncatula]

 Score =  374 bits (960), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/341 (57%), Positives = 248/341 (72%), Gaps = 23/341 (6%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQ 60
           MA+RVT +FSGYVAQNL  SAG+R      ++R   EC    R+F  + K DL+    ++
Sbjct: 1   MAIRVTFSFSGYVAQNLVSSAGVR----VANSRCVQECCILSRLFGSNPKPDLERSGGFR 56

Query: 61  PKANYR------------CNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGV 108
            +  Y              +TLA EI  + +CN+PI++GL+S+MKSTA + G ++ +MG 
Sbjct: 57  NRNLYSDFTKPRNSPVSVYSTLAGEILSE-SCNNPIILGLISMMKSTA-ISGSTSAAMGA 114

Query: 109 FGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQ----FSGSENLNGVS 164
            GISPFK +SIIPFLQGSKWLPCNE      +  VDKGGT  + Q     S  E+   ++
Sbjct: 115 MGISPFKTSSIIPFLQGSKWLPCNESVPTATTWEVDKGGTRIQSQPVSVSSDKESRLDLN 174

Query: 165 LQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRIL 224
            +  T+G W+SKLLNVCS+DAKA FTA+TVS LFKSFLAEP+SIPSASM PTL+VGDR+L
Sbjct: 175 QKENTNG-WISKLLNVCSEDAKAVFTAVTVSLLFKSFLAEPKSIPSASMYPTLEVGDRVL 233

Query: 225 AEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284
            EK S+FF++P+VSDIVIF+AP  L+  GFSS DVFIKR+VA AGD VEV  GKLLVNGV
Sbjct: 234 TEKFSFFFRKPDVSDIVIFKAPSWLKAYGFSSSDVFIKRVVAKAGDVVEVRDGKLLVNGV 293

Query: 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           A+DE+F+LEPLAYE+ P+VVP+G+VFV+GDNRN SFDSHNW
Sbjct: 294 AEDEEFVLEPLAYELAPMVVPKGHVFVMGDNRNKSFDSHNW 334

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357465371|ref|XP_003602967.1| Thylakoidal processing peptidase [Medicago truncatula] gi|355492015|gb|AES73218.1| Thylakoidal processing peptidase [Medicago truncatula]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 196/341 (57%), Positives = 248/341 (72%), Gaps = 23/341 (6%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDLDPPPNYQ 60
           MA+RVT +FSGYVAQNL  SAG+R      ++R   EC    R+F  + K DL+    ++
Sbjct: 1   MAIRVTFSFSGYVAQNLVSSAGVR----VANSRCVQECCILSRLFGSNPKPDLERSGGFR 56

Query: 61  PKANYR------------CNTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGV 108
            +  Y              +TLA EI  + +CN+PI++GL+S+MKSTA + G ++ +MG 
Sbjct: 57  NRNLYSDFTKPRNSPVSVYSTLAGEILSE-SCNNPIILGLISMMKSTA-ISGSTSAAMGA 114

Query: 109 FGISPFKAASIIPFLQGSKWLPCNEPGTVPESDYVDKGGTTDKIQ----FSGSENLNGVS 164
            GISPFK +SIIPFLQGSKWLPCNE      +  VDKGGT  + Q     S  E+   ++
Sbjct: 115 MGISPFKTSSIIPFLQGSKWLPCNESVPTATTWEVDKGGTRIQSQPVSVSSDKESRLDLN 174

Query: 165 LQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRIL 224
            +  T+G W+SKLLNVCS+DAKA FTA+TVS LFKSFLAEP+SIPSASM PTL+VGDR+L
Sbjct: 175 QKENTNG-WISKLLNVCSEDAKAVFTAVTVSLLFKSFLAEPKSIPSASMYPTLEVGDRVL 233

Query: 225 AEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284
            EK S+FF++P+VSDIVIF+AP  L+  GFSS DVFIKR+VA AGD VEV  GKLLVNGV
Sbjct: 234 TEKFSFFFRKPDVSDIVIFKAPSWLKAYGFSSSDVFIKRVVAKAGDVVEVRDGKLLVNGV 293

Query: 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           A+DE+F+LEPLAYE+ P+VVP+G+VFV+GDNRN SFDSHNW
Sbjct: 294 AEDEEFVLEPLAYELAPMVVPKGHVFVMGDNRNKSFDSHNW 334

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15222236|ref|NP_172171.1| signal peptidase I [Arabidopsis thaliana] gi|75312311|sp|Q9M9Z2.1|TPP2_ARATH RecName: Full=Probable thylakoidal processing peptidase 2, chloroplastic; AltName: Full=Signal peptidase I-2; Flags: Precursor gi|7523697|gb|AAF63136.1|AC011001_6 putative signal peptidase [Arabidopsis thaliana] gi|89000987|gb|ABD59083.1| At1g06870 [Arabidopsis thaliana] gi|332189926|gb|AEE28047.1| signal peptidase I [Arabidopsis thaliana]

 Score =  339 bits (869), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 186/340 (54%), Positives = 235/340 (69%), Gaps = 28/340 (8%)

Query: 1   MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFCHSKKTDL-DPPP-- 57
           MA+RVT  +S YVA+++A SAG R G  T   RS  E   RPR   H++  D+ D  P  
Sbjct: 1   MAIRVTFTYSSYVARSIASSAGTRVG--TGDVRSCFETWVRPRFCGHNQIPDIVDKSPGS 58

Query: 58  -NYQPKANYRC-------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGVF 109
             + P +  R        +T+A EI  +G C SP+++G++SLM  T     P  + M   
Sbjct: 59  NTWGPSSGPRARPASSMYSTIAREILEEG-CKSPLVLGMISLMNLTGA---PQFSGMTGL 114

Query: 110 GISPFKAASIIPFLQGSKWLPCNEPGTVP-ESDYVDKGGTT--DKIQFSGSENL-NGVSL 165
           GISPFK +S+IPFL+GSKW+PC+ P T+  +   VD+GG     K++   S+ + NG   
Sbjct: 115 GISPFKTSSVIPFLRGSKWMPCSIPATLSTDIAEVDRGGKVCDPKVKLELSDKVSNG--- 171

Query: 166 QLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILA 225
                  W++KLLN+CS+DAKAAFTA+TVS LF+S LAEP+SIPS SM PTLDVGDR++A
Sbjct: 172 ----GNGWVNKLLNICSEDAKAAFTAVTVSLLFRSALAEPKSIPSTSMLPTLDVGDRVIA 227

Query: 226 EKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVA 285
           EKVSYFF++PEVSDIVIF+APPIL E G+S  DVFIKRIVA+ GD VEV  GKLLVN   
Sbjct: 228 EKVSYFFRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVNDTV 287

Query: 286 QDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           Q EDF+LEP+ YEM+P+ VPEGYVFVLGDNRN SFDSHNW
Sbjct: 288 QAEDFVLEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNW 327

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	325
TAIR|locus:2033108	367	Plsp2A "plastidic type I signa	0.956	0.847	0.554	1.3e-86
TAIR|locus:2064337	340	TPP "thylakoid processing pept	0.701	0.670	0.627	1.2e-74
TAIR|locus:2091717	291	PLSP1 "plastidic type i signal	0.455	0.508	0.648	7.4e-50
TIGR_CMR|DET_1192	192	DET_1192 "signal peptidase I"	0.338	0.572	0.396	1.7e-15
TIGR_CMR|CHY_1360	184	CHY_1360 "signal peptidase I"	0.433	0.766	0.314	1.9e-14
UNIPROTKB|Q10789	294	lepB "Signal peptidase I" [Myc	0.218	0.241	0.402	8.4e-14
TIGR_CMR|GSU_1267	222	GSU_1267 "signal peptidase I"	0.455	0.666	0.317	1.5e-13
TIGR_CMR|BA_3977	183	BA_3977 "signal peptidase I S"	0.4	0.710	0.333	1.6e-12
TIGR_CMR|ECH_0690	235	ECH_0690 "signal peptidase I"	0.276	0.382	0.369	5.4e-11
TIGR_CMR|SO_2924	220	SO_2924 "signal peptidase I fa	0.335	0.495	0.314	1.6e-10

TAIR|locus:2033108 Plsp2A "plastidic type I signal peptidase 2A" [Arabidopsis thaliana (taxid:3702)]

 Score = 866 (309.9 bits), Expect = 1.3e-86, P = 1.3e-86
 Identities = 189/341 (55%), Positives = 238/341 (69%)

Query:     1 MALRVTVNFSGYVAQNLAHSAGIRFGFSTTSTRSFHECLFRPRVFC-HSKKTDL-DPPPN 58
             MA+RVT  +S YVA+++A SAG R G  T   RS  E   RPR FC H++  D+ D  P 
Sbjct:     1 MAIRVTFTYSSYVARSIASSAGTRVG--TGDVRSCFETWVRPR-FCGHNQIPDIVDKSPG 57

Query:    59 ---YQPKANYRC-------NTLAAEIFGDGACNSPILMGLVSLMKSTAGMPGPSATSMGV 108
                + P +  R        +T+A EI  +G C SP+++G++SLM  T     P  + M  
Sbjct:    58 SNTWGPSSGPRARPASSMYSTIAREILEEG-CKSPLVLGMISLMNLTGA---PQFSGMTG 113

Query:   109 FGISPFKAASIIPFLQGSKWLPCNEPGTVP-ESDYVDKGGTT-D-KIQFSGSENL-NGVS 164
              GISPFK +S+IPFL+GSKW+PC+ P T+  +   VD+GG   D K++   S+ + NG  
Sbjct:   114 LGISPFKTSSVIPFLRGSKWMPCSIPATLSTDIAEVDRGGKVCDPKVKLELSDKVSNG-- 171

Query:   165 LQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRIL 224
                     W++KLLN+CS+DAKAAFTA+TVS LF+S LAEP+SIPS SM PTLDVGDR++
Sbjct:   172 -----GNGWVNKLLNICSEDAKAAFTAVTVSLLFRSALAEPKSIPSTSMLPTLDVGDRVI 226

Query:   225 AEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV 284
             AEKVSYFF++PEVSDIVIF+APPIL E G+S  DVFIKRIVA+ GD VEV  GKLLVN  
Sbjct:   227 AEKVSYFFRKPEVSDIVIFKAPPILVEHGYSCADVFIKRIVASEGDWVEVCDGKLLVNDT 286

Query:   285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
              Q EDF+LEP+ YEM+P+ VPEGYVFVLGDNRN SFDSHNW
Sbjct:   287 VQAEDFVLEPIDYEMEPMFVPEGYVFVLGDNRNKSFDSHNW 327

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA;ISS

GO:0016021 "integral to membrane" evidence=IEA

TAIR|locus:2064337 TPP "thylakoid processing peptide" [Arabidopsis thaliana (taxid:3702)]

 Score = 753 (270.1 bits), Expect = 1.2e-74, P = 1.2e-74
 Identities = 155/247 (62%), Positives = 189/247 (76%)

Query:    82 SPILMGLVSLMKSTAGMPGPSATSMGVFGISPFKAASIIPFLQGSKWLPCNEPGTVPESD 141
             SP++MGL+S++KST G     +++M V G+S FKA+SIIPFLQGSKW+    P   P  D
Sbjct:    70 SPLVMGLISILKSTTGH---ESSTMNVLGVSSFKASSIIPFLQGSKWI--KNP---PVID 121

Query:   142 YVDKGGTTDKIQFSGSENLNGVSLQLKTSGSWLSKLLNVCSDDAKAAFTALTVSFLFKSF 201
              VDKGGT         E+ NG S        W++KLL+VCS+DAKAAFTA+TVS LF+S 
Sbjct:   122 DVDKGGTVCDDD-DDKESRNGGS-------GWVNKLLSVCSEDAKAAFTAVTVSILFRSA 173

Query:   202 LAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPIL---QEIGFSSGD 258
             LAEP+SIPS SM PTLD GDR++AEKVSYFF++PEVSDIVIF+APPIL    E G+SS D
Sbjct:   174 LAEPKSIPSTSMYPTLDKGDRVMAEKVSYFFRKPEVSDIVIFKAPPILLEYPEYGYSSND 233

Query:   259 VFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNN 318
             VFIKRIVA+ GD VEV  GKL VN + Q+EDF+LEP++YEM+P+ VP+GYVFVLGDNRN 
Sbjct:   234 VFIKRIVASEGDWVEVRDGKLFVNDIVQEEDFVLEPMSYEMEPMFVPKGYVFVLGDNRNK 293

Query:   319 SFDSHNW 325
             SFDSHNW
Sbjct:   294 SFDSHNW 300

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0016020 "membrane" evidence=IEA;ISS

GO:0016021 "integral to membrane" evidence=IEA

GO:0004175 "endopeptidase activity" evidence=IDA

GO:0006465 "signal peptide processing" evidence=IDA

GO:0009534 "chloroplast thylakoid" evidence=IDA

TAIR|locus:2091717 PLSP1 "plastidic type i signal peptidase 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 519 (187.8 bits), Expect = 7.4e-50, P = 7.4e-50
 Identities = 96/148 (64%), Positives = 119/148 (80%)

Query:   178 LNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEV 237
             L+  SDDA+  F A+ VS  F+ F+AEPR IPS SM PT DVGDR++AEKVSY+F++P  
Sbjct:   108 LDFTSDDAQTVFVAIAVSLAFRYFIAEPRYIPSLSMYPTFDVGDRLVAEKVSYYFRKPCA 167

Query:   238 SDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAY 297
             +DIVIF++PP+LQE+G++  DVFIKRIVA  GD VEVH GKL+VNGVA++E FILEP  Y
Sbjct:   168 NDIVIFKSPPVLQEVGYTDADVFIKRIVAKEGDLVEVHNGKLMVNGVARNEKFILEPPGY 227

Query:   298 EMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
             EM P+ VPE  VFV+GDNRNNS+DSH W
Sbjct:   228 EMTPIRVPENSVFVMGDNRNNSYDSHVW 255

GO:0006508 "proteolysis" evidence=IEA;ISS

GO:0008233 "peptidase activity" evidence=ISS;IMP

GO:0008236 "serine-type peptidase activity" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0016020 "membrane" evidence=ISS

GO:0009535 "chloroplast thylakoid membrane" evidence=IDA

GO:0009526 "plastid envelope" evidence=IDA

GO:0010027 "thylakoid membrane organization" evidence=RCA;IMP

GO:0051604 "protein maturation" evidence=IMP

GO:0006364 "rRNA processing" evidence=RCA

GO:0009902 "chloroplast relocation" evidence=RCA

GO:0010207 "photosystem II assembly" evidence=RCA

GO:0010267 "production of ta-siRNAs involved in RNA interference" evidence=RCA

GO:0019761 "glucosinolate biosynthetic process" evidence=RCA

GO:0034660 "ncRNA metabolic process" evidence=RCA

GO:0035196 "production of miRNAs involved in gene silencing by miRNA" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0042793 "transcription from plastid promoter" evidence=RCA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA

GO:0051607 "defense response to virus" evidence=RCA

TIGR_CMR|DET_1192 DET_1192 "signal peptidase I" [Dehalococcoides ethenogenes 195 (taxid:243164)]

 Score = 197 (74.4 bits), Expect = 1.7e-15, P = 1.7e-15
 Identities = 46/116 (39%), Positives = 66/116 (56%)

Query:   208 IPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT 267
             +  +SM+PTL    R+L  K++Y F  P+  DI++F  PP  Q   +S  + FIKRI+  
Sbjct:    42 VDGSSMDPTLKDEQRLLVNKLAYLFGEPQRGDIIVF--PPPEQ---YSYENDFIKRIIGL 96

Query:   268 AGDCVEV-HGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDS 322
              GD VEV   G + +N     E +++ P A+    V VPEG  +V+GDNR  S DS
Sbjct:    97 PGDSVEVKEDGTVYINDQPLSEPYVVYPKAFPTTKVYVPEGQYYVMGDNRVVSLDS 152

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|CHY_1360 CHY_1360 "signal peptidase I" [Carboxydothermus hydrogenoformans Z-2901 (taxid:246194)]

 Score = 188 (71.2 bits), Expect = 1.9e-14, P = 1.9e-14
 Identities = 49/156 (31%), Positives = 83/156 (53%)

Query:   170 SGSWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVS 229
             S SW +++    S    AA  A+ ++F+ K+F+ +   +P+ SM PT+   DR++  K  
Sbjct:    12 SFSWKNEIKEFIS----AAIWAVILAFIIKTFIFQLTYVPTGSMIPTILPNDRVVVLKFW 67

Query:   230 YFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDED 289
             Y  K  E   IV+F  PP       ++   FIKR++   G+ +E+    + +NG    E+
Sbjct:    68 YKIKPIERGQIVVFD-PP-----NSANSPPFIKRVIGLPGETLEIKNNTVYINGKPLKEN 121

Query:   290 FILEPLAYEMDPV---VVPEGYVFVLGDNRNNSFDS 322
             ++  P   EM+P     +P+  +FV+GDNR +S DS
Sbjct:   122 YL--PAKMEMEPFGPFKIPKDAIFVMGDNRQHSADS 155

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

UNIPROTKB|Q10789 lepB "Signal peptidase I" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 141 (54.7 bits), Expect = 8.4e-14, Sum P(2) = 8.4e-14
 Identities = 31/77 (40%), Positives = 46/77 (59%)

Query:   185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLD-----VGDRILAEKVSYFFKRPEVSD 239
             A  A  A+ + ++  +F+A P  IPS SM PTL      VGDRI+ +K+SY F  P+  D
Sbjct:    69 AVLAVIAVVLYYVMLTFVARPYLIPSESMEPTLHGCSTCVGDRIMVDKLSYRFGSPQPGD 128

Query:   240 IVIFRAPPILQEIGFSS 256
             +++FR PP    +G+ S
Sbjct:   129 VIVFRGPPSWN-VGYKS 144

GO:0005576 "extracellular region" evidence=IGI

GO:0005887 "integral to plasma membrane" evidence=IDA

GO:0040007 "growth" evidence=IMP

TIGR_CMR|GSU_1267 GSU_1267 "signal peptidase I" [Geobacter sulfurreducens PCA (taxid:243231)]

 Score = 180 (68.4 bits), Expect = 1.5e-13, P = 1.5e-13
 Identities = 53/167 (31%), Positives = 82/167 (49%)

Query:   176 KLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRP 235
             K  ++  + A++   A+ ++ + ++F+ +   IPS SM  TL +GD IL  K  Y  K P
Sbjct:    22 KKKHIVREYAESIIIAVILALIIRTFVVQAFKIPSGSMEDTLAIGDHILVSKFIYGTKIP 81

Query:   236 EVSDIVI-FRAPP----ILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNG------- 283
              V    +  R P     I+ E        FIKR++   GD ++V   ++ +NG       
Sbjct:    82 FVDGRYLKIRDPKRGDVIVFEYPEDPSKDFIKRVIGLPGDTIQVVQKQVFINGKPFSVPQ 141

Query:   284 -VAQDEDFILEPLAYE----MDPVVVPEGYVFVLGDNRNNSFDSHNW 325
              V +++D I  P A        PV VPE   FV+GDNR+ S+DS  W
Sbjct:   142 EVHKEKDVI--PAAQNPRDNFGPVTVPENSYFVMGDNRDRSYDSRFW 186

GO:0006465 "signal peptide processing" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|BA_3977 BA_3977 "signal peptidase I S" [Bacillus anthracis str. Ames (taxid:198094)]

 Score = 171 (65.3 bits), Expect = 1.6e-12, P = 1.6e-12
 Identities = 51/153 (33%), Positives = 76/153 (49%)

Query:   186 KAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRA 245
             KA   A+ ++ + + F   P  +   SM  TL   DR++  K+ Y    P+  DI++FRA
Sbjct:    13 KAILIAVVLAGVIRQFFFAPILVDGVSMASTLHDRDRMIVNKIGYHIGDPKRFDIIVFRA 72

Query:   246 PPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILE--------PLAY 297
                         D +IKRI+   GD +E    KL VNG A +E ++ +        PL Y
Sbjct:    73 T--------EDKD-YIKRIIGLPGDEIEYRNDKLYVNGKAYEEPYLDKQKKQIADGPLTY 123

Query:   298 E--MDPVV----VPEGYVFVLGDNRNNSFDSHN 324
             +  ++ +     VPEG +FVLGDNR  S DS +
Sbjct:   124 DFTLEEMTGKKTVPEGQLFVLGDNRRFSKDSRS 156

GO:0006508 "proteolysis" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|ECH_0690 ECH_0690 "signal peptidase I" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)]

 Score = 123 (48.4 bits), Expect = 5.4e-11, Sum P(2) = 5.4e-11
 Identities = 41/111 (36%), Positives = 54/111 (48%)

Query:   189 FTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPI 248
             F AL V+ L + FL EP  IPS SM  TL VGD I   K SY + +  +     F  P I
Sbjct:    15 FLALVVALLLRVFLFEPFHIPSGSMKSTLLVGDYIFISKYSYGYSKHSIP----FSLPII 70

Query:   249 LQEIGFS----SGDV------------FIKRIVATAGDCVEVHGGKLLVNG 283
                I FS    +GDV            +IKR++   GD +++  G L +NG
Sbjct:    71 KGRI-FSKLPKAGDVVVFRPPKEMNLHYIKRVIGVPGDKIQLIDGFLYING 120

GO:0009306 "protein secretion" evidence=ISS

TIGR_CMR|SO_2924 SO_2924 "signal peptidase I family protein" [Shewanella oneidensis MR-1 (taxid:211586)]

 Score = 133 (51.9 bits), Expect = 1.6e-10, Sum P(2) = 1.6e-10
 Identities = 39/124 (31%), Positives = 65/124 (52%)

Query:   192 LTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQE 251
             +++  +F+S +A+  ++P+ SM PT+  GDRIL  K++Y  + P     ++  A P+  +
Sbjct:    19 ISLMLVFRSAVADWNTVPTGSMLPTIVEGDRILVNKMAYDVRVPFTHIALVKLADPVRGD 78

Query:   252 IG-FSSGDV---FIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPV--VVP 305
             I  F S +     IKR++A  GD V +   +L +NG         EPLAY+   +    P
Sbjct:    79 IVVFDSKNADKRLIKRVIAVPGDTVMMRDNRLYLNG---------EPLAYKPQALSPYAP 129

Query:   306 EGYV 309
              G V
Sbjct:   130 AGVV 133

GO:0006508 "proteolysis" evidence=ISS

GO:0009306 "protein secretion" evidence=ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9M9Z2	TPP2_ARATH	3, ., 4, ., 2, 1, ., 8, 9	0.5470	0.96	0.8501	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.21	0.963
3rd Layer	3.4.21.89	0.946

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00014743001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (345 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00019235001	SubName- Full=Chromosome chr7 scaffold_20, whole genome shotgun sequence; (603 aa)	•						•		0.509

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	325
TIGR02227	163	TIGR02227, sigpep_I_bact, signal peptidase I, bact	2e-40
cd06530	85	cd06530, S26_SPase_I, The S26 Type I signal peptid	2e-20
COG0681	166	COG0681, LepB, Signal peptidase I [Intracellular t	2e-12
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	1e-11
pfam10502	138	pfam10502, Peptidase_S26, Signal peptidase, peptid	2e-10
cd06462	84	cd06462, Peptidase_S24_S26, The S24, S26 LexA/sign	9e-10
pfam00717	69	pfam00717, Peptidase_S24, Peptidase S24-like	2e-07
TIGR02771	171	TIGR02771, TraF_Ti, conjugative transfer signal pe	6e-04
PRK10861	324	PRK10861, PRK10861, signal peptidase I; Provisiona	7e-04

>gnl|CDD|233790 TIGR02227, sigpep_I_bact, signal peptidase I, bacterial type

 Score =  138 bits (351), Expect = 2e-40
 Identities = 54/148 (36%), Positives = 79/148 (53%), Gaps = 15/148 (10%)

Query: 186 KAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRA 245
            +   A+ ++ L ++F+  P  +P  SM PTL  GDRIL  K +Y    P+  DIV+F+ 
Sbjct: 3   LSLLIAILLALLIRTFVFFPYKVPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKD 62

Query: 246 PPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFI--------LEPLAY 297
           P         + +++IKR++   GD VE   GKL +NG   DE ++         E    
Sbjct: 63  PD-------DNKNIYIKRVIGLPGDKVEFRDGKLYINGKKIDEPYLKPNGFLDTSEFNTT 115

Query: 298 EMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
           +  PV VP G+ FVLGDNR+NS DS  +
Sbjct: 116 DYGPVTVPPGHYFVLGDNRDNSLDSRYF 143

This model represents signal peptidase I from most bacteria. Eukaryotic sequences are likely organellar. Several bacteria have multiple paralogs, but these represent isozymes of signal peptidase I. Virtually all known bacteria may be presumed to A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes [Protein fate, Protein and peptide secretion and trafficking]. Length = 163

>gnl|CDD|119398 cd06530, S26_SPase_I, The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3

 Score = 83.8 bits (208), Expect = 2e-20
 Identities = 37/122 (30%), Positives = 48/122 (39%), Gaps = 49/122 (40%)

Query: 204 EPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKR 263
           EP  +P  SM PTL  GD +L  K+SY F+ P+  D+V+F++P          G   IKR
Sbjct: 1   EPVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSPG-------DPGKPIIKR 53

Query: 264 IVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSH 323
           ++                                            FVLGDNRNNS DS 
Sbjct: 54  VIG------------------------------------------YFVLGDNRNNSLDSR 71

Query: 324 NW 325
            W
Sbjct: 72  YW 73

4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa) belong to this family and they process many proteins that enter the ER for retention or for export to the Golgi apparatus, secretory vesicles, plasma membranes or vacuole. An atypical member of the S26 SPase type I family is the TraF peptidase which has the remarkable activity of producing a cyclic protein of the Pseudomonas pilin system. The type I signal peptidases are unique serine proteases that utilize a serine/lysine catalytic dyad mechanism in place of the classical serine/histidine/aspartic acid catalytic triad mechanism. Length = 85

>gnl|CDD|223753 COG0681, LepB, Signal peptidase I [Intracellular trafficking and secretion]

 Score = 63.9 bits (155), Expect = 2e-12
 Identities = 41/151 (27%), Positives = 61/151 (40%), Gaps = 12/151 (7%)

Query: 172 SWLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYF 231
             L K L + S    A   AL +      F+ EP  +PS SM PTL+VGDR+L +K SY 
Sbjct: 2   KRLLKFLELISSLLIAIILALIIGVRT--FVFEPVVVPSGSMEPTLNVGDRVLVKKFSYG 59

Query: 232 FKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFI 291
           F + +V DI++                  IKR++   GD V     +L V  +      +
Sbjct: 60  FGKLKVPDIIVL---------PAVVEGDLIKRVIGLRGDIVVFKDDRLYVVPIIPRVYGL 110

Query: 292 LEPLAYEMDPVVVPEGYVF-VLGDNRNNSFD 321
           +E    +    V+       V G      + 
Sbjct: 111 VEKDNGKHLVDVIVNANSSRVFGIITKKDYI 141

Length = 166

>gnl|CDD|182787 PRK10861, PRK10861, signal peptidase I; Provisional

 Score = 63.9 bits (156), Expect = 1e-11
 Identities = 37/98 (37%), Positives = 48/98 (48%), Gaps = 23/98 (23%)

Query: 189 FTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFK------------RPE 236
           F  L +  + +SF+ EP  IPS SM PTL +GD IL EK +Y  K             P+
Sbjct: 68  FPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPK 127

Query: 237 VSDIVIFRAP--PILQEIGFSSGDVFIKRIVATAGDCV 272
             DIV+F+ P  P L          +IKR+V   GD V
Sbjct: 128 RGDIVVFKYPEDPKLD---------YIKRVVGLPGDKV 156

Length = 324

>gnl|CDD|151062 pfam10502, Peptidase_S26, Signal peptidase, peptidase S26

 Score = 57.2 bits (139), Expect = 2e-10
 Identities = 31/98 (31%), Positives = 46/98 (46%), Gaps = 9/98 (9%)

Query: 234 RPEVSDIVIFRAPP----ILQEIGF-SSGDVFIKRIVATAGDCVEVHGGKLLVNGV---- 284
           RPEV D+V    P        E G+   G   +KR++A  G  V +  G + ++GV    
Sbjct: 21  RPEVGDLVAVCPPEPAAFFAAERGYLPRGVPLLKRVLALPGQRVCIRDGLVTIDGVPVSA 80

Query: 285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDS 322
           A + D    PL       V+PEG +F++     +SFDS
Sbjct: 81  ALERDRKGRPLPPWQGCRVLPEGELFLMSVTSPDSFDS 118

This is a family of membrane signal serine endopeptidases which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal, signal peptides as proteins are translocated across membranes. The active site residues take the form of a catalytic dyad that is Ser, Lys in subfamily S26A; the Ser is the nucleophile in catalysis, and the Lys is the general base. Length = 138

>gnl|CDD|119396 cd06462, Peptidase_S24_S26, The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families

 Score = 54.2 bits (131), Expect = 9e-10
 Identities = 32/118 (27%), Positives = 45/118 (38%), Gaps = 49/118 (41%)

Query: 208 IPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT 267
           +   SM PT+  GD +L +K SY    P+  DIV+FR P          G++ +KR++  
Sbjct: 5   VEGDSMEPTIPDGDLVLVDKSSY---EPKRGDIVVFRLP---------GGELTVKRVIGL 52

Query: 268 AGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
            G                                    EG+ F+LGDN  NS DS   
Sbjct: 53  PG------------------------------------EGHYFLLGDN-PNSPDSRID 73

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the transport of proteins across membranes in all living organisms. All members in this superfamily are unique serine proteases that carry out catalysis using a serine/lysine dyad instead of the prototypical serine/histidine/aspartic acid triad found in most serine proteases. Length = 84

>gnl|CDD|216079 pfam00717, Peptidase_S24, Peptidase S24-like

 Score = 47.2 bits (113), Expect = 2e-07
 Identities = 19/80 (23%), Positives = 33/80 (41%), Gaps = 17/80 (21%)

Query: 208 IPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT 267
           +   SM PT+  GD +L +K       P+  DIV+ R             +  +KR++  
Sbjct: 2   VKGDSMEPTIPDGDLLLVDK----TSEPKRGDIVVARLDG---------EEATVKRLIGL 48

Query: 268 AGDCVEVH----GGKLLVNG 283
            GD + +        + +NG
Sbjct: 49  PGDIILLPSNPEYPPIYING 68

Length = 69

>gnl|CDD|131818 TIGR02771, TraF_Ti, conjugative transfer signal peptidase TraF

 Score = 39.8 bits (93), Expect = 6e-04
 Identities = 21/69 (30%), Positives = 29/69 (42%), Gaps = 8/69 (11%)

Query: 260 FIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILE------PLAYEMDPVVVPEGYVFVLG 313
            +KR++   GD V V    + +NG        L       PL       V+P G+ FV+ 
Sbjct: 84  LLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRPLP-PFPEGVIPPGF-FVVH 141

Query: 314 DNRNNSFDS 322
           D    SFDS
Sbjct: 142 DTSPTSFDS 150

This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems. Length = 171

>gnl|CDD|182787 PRK10861, PRK10861, signal peptidase I; Provisional

 Score = 40.4 bits (95), Expect = 7e-04
 Identities = 14/23 (60%), Positives = 17/23 (73%)

Query: 303 VVPEGYVFVLGDNRNNSFDSHNW 325
           VVP G  F++GDNR+NS DS  W
Sbjct: 263 VVPPGQYFMMGDNRDNSADSRYW 285

Length = 324

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	325
TIGR02227	163	sigpep_I_bact signal peptidase I, bacterial type.	100.0
PRK10861	324	signal peptidase I; Provisional	99.98
KOG0171	176	consensus Mitochondrial inner membrane protease, s	99.95
PRK13838	176	conjugal transfer pilin processing protease TraF;	99.9
PRK13884	178	conjugal transfer peptidase TraF; Provisional	99.87
TIGR02771	171	TraF_Ti conjugative transfer signal peptidase TraF	99.85
PF10502	138	Peptidase_S26: Signal peptidase, peptidase S26 ; I	99.81
KOG1568	174	consensus Mitochondrial inner membrane protease, s	99.77
cd06530	85	S26_SPase_I The S26 Type I signal peptidase (SPase	99.59
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	99.58
TIGR02754	90	sod_Ni_protease nickel-type superoxide dismutase m	99.58
COG4959	173	TraF Type IV secretory pathway, protease TraF [Pos	99.39
TIGR02228	158	sigpep_I_arch signal peptidase I, archaeal type. T	99.29
PF00717	70	Peptidase_S24: Peptidase S24-like peptidase classi	99.18
cd06462	84	Peptidase_S24_S26 The S24, S26 LexA/signal peptida	98.73
cd06529	81	S24_LexA-like Peptidase S24 LexA-like proteins are	98.48
KOG3342	180	consensus Signal peptidase I [Intracellular traffi	98.05
COG2932	214	Predicted transcriptional regulator [Transcription	97.99
PRK00215	205	LexA repressor; Validated	97.73
TIGR00498	199	lexA SOS regulatory protein LexA. LexA acts as a h	97.58
PRK10276	139	DNA polymerase V subunit UmuD; Provisional	97.47
PRK12423	202	LexA repressor; Provisional	97.42
COG1974	201	LexA SOS-response transcriptional repressors (RecA	94.85
COG0681	166	LepB Signal peptidase I [Intracellular trafficking	91.91

>TIGR02227 sigpep_I_bact signal peptidase I, bacterial type

Probab=100.00  E-value=8.3e-35  Score=255.68  Aligned_cols=134  Identities=40%  Similarity=0.694  Sum_probs=119.2

Q ss_pred             HHHHHHHHHHHHHHHHheeeeEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEE
Q 020531          185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRI  264 (325)
Q Consensus       185 l~~i~iai~v~lll~~fv~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRV  264 (325)
                      ++.++++++++++++.|+++++.|+|+||+|||++||+++++|..+...++++||+|+|+.|.+       .++.+||||
T Consensus         2 ~~~~~~~~~~~~~i~~~~~~~~~v~g~SM~Ptl~~Gd~vlv~k~~~~~~~~~rGDiVvf~~~~~-------~~~~~iKRV   74 (163)
T TIGR02227         2 ILSLLIAILLALLIRTFVFFPYKIPGGSMEPTLKEGDRILVNKFAYGTSDPKRGDIVVFKDPDD-------NKNIYVKRV   74 (163)
T ss_pred             HHHHHHHHHHHHHHHhhEEEEEEECCcccccchhCCCEEEEEEeEcCCCCCCCCcEEEEecCCC-------CCceeEEEE
Confidence            4566778888899999999999999999999999999999999988888999999999998754       467899999


Q ss_pred             EEeCCCEEEEeCCEEEECCeecCccccccCCC--------CCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          265 VATAGDCVEVHGGKLLVNGVAQDEDFILEPLA--------YEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       265 IGlPGDtV~Ik~g~lyVNGk~l~e~yi~~p~~--------~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      +|+|||+|+++++.+||||+.++|.|..+...        ....+.+||+|||||||||+++|+|||||
T Consensus        75 ig~pGd~v~i~~~~l~vNg~~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~g~~fvlGDnr~~S~DSR~~  143 (163)
T TIGR02227        75 IGLPGDKVEFRDGKLYINGKKIDEPYLKPNGSLDTSGFNTTDFKPVTVPPGHYFVLGDNRDNSLDSRYF  143 (163)
T ss_pred             EecCCCEEEEECCEEEECCEECcccccccccccccccccccccCceEECCCCEEEECCCCCCCcccCCc
Confidence            99999999999999999999999988654311        22346899999999999999999999998

A related model finds a simlar protein in many archaea and a few bacteria, as well as a microsomal (endoplasmic reticulum) protein in eukaryotes.

>PRK10861 signal peptidase I; Provisional

Probab=99.98  E-value=7.4e-32  Score=260.75  Aligned_cols=94  Identities=36%  Similarity=0.568  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHHHHHHHheeeeEEECCCCCCCCCCCCCEEEEEeccccC------------CCCccccEEEEecCCccccc
Q 020531          185 AKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFF------------KRPEVSDIVIFRAPPILQEI  252 (325)
Q Consensus       185 l~~i~iai~v~lll~~fv~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~------------~~pkrGDIVVF~~P~~~~~~  252 (325)
                      +..++++++++++++.|+++++.|+++||+|||..||+|+|+|++|++            .+|+|||||+|+.|.+    
T Consensus        64 ~~~~~~~l~i~~~ir~fv~~~~~Ips~SM~PTL~~GD~IlVnK~~yg~~~p~~~~~~~~~~~p~RGDIVVF~~P~~----  139 (324)
T PRK10861         64 GASVFPVLAIVLIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPITQTTLIETGHPKRGDIVVFKYPED----  139 (324)
T ss_pred             HHHHHHHHhHHHHHHhhEEEEEEECCCcCcCcccCCCEEEEEEeecCccCccccccccccCCCCCCCEEEEecCCC----
Confidence            456777888899999999999999999999999999999999999874            5789999999998875    


Q ss_pred             ccCCCCeEEEEEEEeCCCEEEEe--CCEEEECCee
Q 020531          253 GFSSGDVFIKRIVATAGDCVEVH--GGKLLVNGVA  285 (325)
Q Consensus       253 ~y~~g~~~IKRVIGlPGDtV~Ik--~g~lyVNGk~  285 (325)
                         +++.+||||||+|||+|+++  ++.|||||+.
T Consensus       140 ---~~~~yIKRVIGlPGD~I~~~~~~~~l~iNg~~  171 (324)
T PRK10861        140 ---PKLDYIKRVVGLPGDKVTYDPVSKEVTIQPGC  171 (324)
T ss_pred             ---CCCcEEEEeeecCCcEEEEEeCCCEEEEcCcc
Confidence               56789999999999999998  8999999974

>KOG0171 consensus Mitochondrial inner membrane protease, subunit IMP1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.95  E-value=3.4e-28  Score=213.65  Aligned_cols=129  Identities=53%  Similarity=0.786  Sum_probs=108.1

Q ss_pred             hhHHHHHhhhhHHHHHHHHHHHHHHHHHheeeeEEECCCCCCCCCCC-CCEEEEEeccccCCCCccccEEEEecCCcccc
Q 020531          173 WLSKLLNVCSDDAKAAFTALTVSFLFKSFLAEPRSIPSASMNPTLDV-GDRILAEKVSYFFKRPEVSDIVIFRAPPILQE  251 (325)
Q Consensus       173 wl~~~~~~l~~~l~~i~iai~v~lll~~fv~~~~~I~g~SM~PTL~~-GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~  251 (325)
                      |..++  +++...+++|++++..     |++++..++|.||+||++. ||+++.+|++++++++++||||+++.|.+   
T Consensus        10 l~~~~--~~~~~~~~~f~h~t~~-----yl~e~~~~~gpSM~PTl~~~gd~l~aEkls~~f~~~~~gDIVi~~sP~~---   79 (176)
T KOG0171|consen   10 LVGKS--FCSEIAYAAFTHVTHE-----YLGEFVMCSGPSMEPTLHDGGDVLLAEKLSYRFRKPQVGDIVIAKSPPD---   79 (176)
T ss_pred             ccchh--hHHHHHHHHHHHHHHH-----HhcceeeccCCCcCceecCCCcEEehhhhhHhhcCCCCCCEEEEeCCCC---
Confidence            44544  4565666666555544     7789999999999998887 56666799999999999999999999987   


Q ss_pred             cccCCCCeEEEEEEEeCCCEEEEeCCEEEECCeecCccccccCCCCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          252 IGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       252 ~~y~~g~~~IKRVIGlPGDtV~Ik~g~lyVNGk~l~e~yi~~p~~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                          ..+.++|||+|+|||.|++.++.+.+|+..  |.+.        .+++||+||+||+|||+++|+|||+|
T Consensus        80 ----~~~~~cKRIva~eGD~v~v~~~~~~~n~~~--e~~~--------~~i~VP~GhVfv~GDN~~nS~DSr~y  139 (176)
T KOG0171|consen   80 ----PKEHICKRIVAMEGDLVEVHDGPLVVNDLV--EKFS--------TPIRVPEGHVFVEGDNRNNSLDSRNY  139 (176)
T ss_pred             ----chhhhhheeeccCCceEEEecCCcccchhh--hhcc--------ceeeccCceEEEecCCCCCccccccc
Confidence                577899999999999999999999888655  3333        57899999999999999999999998

>PRK13838 conjugal transfer pilin processing protease TraF; Provisional

Probab=99.90  E-value=4e-23  Score=184.81  Aligned_cols=113  Identities=22%  Similarity=0.284  Sum_probs=86.7

Q ss_pred             eeEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCccc-----ccccC-C------CCeEEEEEEEeCCCE
Q 020531          204 EPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ-----EIGFS-S------GDVFIKRIVATAGDC  271 (325)
Q Consensus       204 ~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~-----~~~y~-~------g~~~IKRVIGlPGDt  271 (325)
                      .-+.++.....|       +.++++.+..+++++||+|+|+.|++.+     +++|. .      ...++|||+|+|||+
T Consensus        27 ~~~~~N~T~S~p-------ig~y~~~~~~~~~~rGDiVvf~~P~~~~~~~a~~r~yl~~g~~p~~~~~~iKRViglpGD~   99 (176)
T PRK13838         27 GGYRINLTPSEP-------LGLWRIEALDRPVAVGDLVFICPPETAAFREARERGYLRRGLCPGGFAPLIKTVAALAGQR   99 (176)
T ss_pred             CceEEECCCCCE-------EEEEEEeccCCCCCCCcEEEEECCchhhhhhhhhcccccccccccCCCceEEEEEEeCCcE
Confidence            446666665555       8888887666899999999999887532     13331 1      246999999999999


Q ss_pred             EEEeCCEEEECCeecCccccccCCCC-----CCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          272 VEVHGGKLLVNGVAQDEDFILEPLAY-----EMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       272 V~Ik~g~lyVNGk~l~e~yi~~p~~~-----~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      |++++ .+||||+.++|.|+......     .....+||+|+||||||| ++|+|||||
T Consensus       100 V~i~~-~v~iNg~~~~~~~~~~~~~~g~~l~~~~~~~vp~g~~fvlgd~-~~S~DSRy~  156 (176)
T PRK13838        100 VEIGG-SVSIDGRPLPSSSVRRRDGEGRPLTPFPGGVVPPGHLFLHSSF-AGSYDSRYF  156 (176)
T ss_pred             EEECC-EEEECCEEccccccccccccCCcCCCCCccCcCCCeEEEECCC-CCCCccccc
Confidence            99985 89999999999886543211     123468999999999998 589999998

>PRK13884 conjugal transfer peptidase TraF; Provisional

Probab=99.87  E-value=2.4e-21  Score=173.60  Aligned_cols=113  Identities=25%  Similarity=0.373  Sum_probs=81.8

Q ss_pred             eeEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCccc-----ccccC-----CC--CeEEEEEEEeCCCE
Q 020531          204 EPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ-----EIGFS-----SG--DVFIKRIVATAGDC  271 (325)
Q Consensus       204 ~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~-----~~~y~-----~g--~~~IKRVIGlPGDt  271 (325)
                      ..+.++.....|   .|=+. +.     ...+++||+|+|++|+...     +++|.     ++  ..++|||+|+|||+
T Consensus        29 ~~~~~N~T~S~P---~glY~-~~-----~~~~~~Gd~V~f~~p~~~~~~~a~~rgyl~~g~~p~~~~~liKRVva~pGD~   99 (178)
T PRK13884         29 AGARVNTTKSIP---VGLYW-TS-----SAPVEKGAYVLFCPPQRGVFDDAKERGYIGAGFCPGGYGYMMKRVLAAKGDA   99 (178)
T ss_pred             CcEEEECCCCCc---ceEEE-Ee-----CCCCCCCCEEEEeCCchHHHHHHHhCCccccCcCCCCCCceEEEEEeeCCcE
Confidence            556666655555   33333 22     2579999999999886421     34442     11  37999999999999


Q ss_pred             EEEeCCEEEECCeecCccccc--c----CCC-CCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          272 VEVHGGKLLVNGVAQDEDFIL--E----PLA-YEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       272 V~Ik~g~lyVNGk~l~e~yi~--~----p~~-~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      |+++++.+||||+.+.+.+..  +    +.. +....++||+|+|||||||+++|+|||||
T Consensus       100 V~~~~~~l~VNG~~v~~~~~~~~d~~g~~l~~~~~~~~~lp~g~~fvlgd~~~~S~DSRYf  160 (178)
T PRK13884        100 VSVTDDGVRVNGELLPLSKPILADGAGRPLPRYQANSYTLGESELLLMSDVSATSFDGRYF  160 (178)
T ss_pred             EEEECCEEEECCEEccccccccccccCCcccccCCCceEECCCEEEEECCCCCCCCccccc
Confidence            999999999999998654321  1    121 22234699999999999999999999998

>TIGR02771 TraF_Ti conjugative transfer signal peptidase TraF

Probab=99.85  E-value=9e-21  Score=168.90  Aligned_cols=92  Identities=32%  Similarity=0.439  Sum_probs=72.4

Q ss_pred             CCCccccEEEEecCCccc-----cccc-CCC------CeEEEEEEEeCCCEEEEeCCEEEECCeecCccccccCC-----
Q 020531          233 KRPEVSDIVIFRAPPILQ-----EIGF-SSG------DVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPL-----  295 (325)
Q Consensus       233 ~~pkrGDIVVF~~P~~~~-----~~~y-~~g------~~~IKRVIGlPGDtV~Ik~g~lyVNGk~l~e~yi~~p~-----  295 (325)
                      ++++|||+|+|+.|++.+     +++| ..+      ..+||||+|+|||+|+++++.++|||+.+++.+.....     
T Consensus        45 ~~~~rGDiVvf~~p~~~~~~~~~~rg~l~~g~~p~~~~~~vKRViglpGD~V~i~~~~v~INg~~~~~~~~~~~~~~g~~  124 (171)
T TIGR02771        45 KPVERGDYVVFCPPDNPQFEEARERGYLREGLCPGGFGPLLKRVLGLPGDRVTVRADVVAINGQLLPYSKPLATDSSGRP  124 (171)
T ss_pred             CCCCCCcEEEEeCCCchhhhchhhcCcccccccCcCccceEEEEEEeCCCEEEEECCEEEECCEEcccccccccccCCCc
Confidence            589999999999886432     1222 112      37999999999999999999999999998876543211     


Q ss_pred             CCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          296 AYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       296 ~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      .....+.+||+| ||+||||+++|+|||||
T Consensus       125 l~~~~~~~vp~g-yf~lgdn~~~S~DSRy~  153 (171)
T TIGR02771       125 LPPFPEGVIPPG-FFVVHDTSPTSFDSRYF  153 (171)
T ss_pred             cccCCCcEECCC-EEEECCCCCCCCccccc
Confidence            112247899999 99999999999999998

This protein is found in apparent operons encoding elements of conjugative transfer systems. This family is homologous to a broader family of signal (leader) peptidases such as lepB. This family is present in both Ti-type and I-type conjugative systems.

>PF10502 Peptidase_S26: Signal peptidase, peptidase S26 ; InterPro: IPR019533 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families

Probab=99.81  E-value=2.3e-21  Score=166.87  Aligned_cols=92  Identities=42%  Similarity=0.668  Sum_probs=20.1

Q ss_pred             CCccccEEEEecCCccc----ccccC-CCCeEEEEEEEeCCCEEEEeCCEEEECCeecCcccccc----CCCCCCCcEEe
Q 020531          234 RPEVSDIVIFRAPPILQ----EIGFS-SGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILE----PLAYEMDPVVV  304 (325)
Q Consensus       234 ~pkrGDIVVF~~P~~~~----~~~y~-~g~~~IKRVIGlPGDtV~Ik~g~lyVNGk~l~e~yi~~----p~~~~~~~~~V  304 (325)
                      .+++||+|+|+.|....    +++|. .+..++|||+|+|||+|++++++++|||+++.+.+..+    +......+.+|
T Consensus        21 ~~~rGd~V~f~~p~~~~~~~~~~gy~~~~~~~iKrV~a~pGD~V~v~~~~v~iNG~~~~~~~~~d~~g~~l~~~~~~~~v  100 (138)
T PF10502_consen   21 KIERGDLVVFCPPAEVAFFAAERGYLPEGQPLIKRVAAVPGDTVEVTDGGVYINGRPVGEPLATDSDGRPLPQFSGSGTV  100 (138)
T ss_dssp             --------------------------------------------------------------------S-T----TEEE-
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccCCceEe
Confidence            48999999999987533    34443 45699999999999999999999999998887765443    33333357999


Q ss_pred             cCCcEEEEcCCCCCCCCCCCC
Q 020531          305 PEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       305 P~g~yFVLGDNr~nS~DSRyf  325 (325)
                      |+|+|||||||+.+|+|||||
T Consensus       101 p~g~~~v~gd~~~~S~DSRy~  121 (138)
T PF10502_consen  101 PEGEYFVLGDNRPNSFDSRYF  121 (138)
T ss_dssp             -TTEEEEE-SBTTS--SHHHH
T ss_pred             CCCEEEEecCCCCCccccCEe
Confidence            999999999999999999997

Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This entry represents a conserved region found in the S26A family of serine endopeptidases, which function in the processing of newly-synthesised secreted proteins. Peptidase S26 removes the hydrophobic, N-terminal signal peptides as proteins are translocated across membranes. ; PDB: 3S04_B 1KN9_C 1B12_D 3IIQ_B 1T7D_A.

>KOG1568 consensus Mitochondrial inner membrane protease, subunit IMP2 [Posttranslational modification, protein turnover, chaperones; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.77  E-value=4.9e-19  Score=155.78  Aligned_cols=101  Identities=33%  Similarity=0.535  Sum_probs=86.1

Q ss_pred             HHHheeeeEEECCCCCCCCCCCC------CEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCE
Q 020531          198 FKSFLAEPRSIPSASMNPTLDVG------DRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDC  271 (325)
Q Consensus       198 l~~fv~~~~~I~g~SM~PTL~~G------D~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDt  271 (325)
                      +..-+.....|.|.||.|||+++      |+|+++|+.-..+...+||||+|+.|.+       +++++||||+|+|||.
T Consensus        26 ~~DrV~~va~v~G~smqPtlnP~~~~~~~d~Vll~k~~v~n~~~~rGDiVvl~sP~~-------p~~~~iKRv~alegd~   98 (174)
T KOG1568|consen   26 FSDRVVHVAQVYGSSMQPTLNPTMNTNEKDTVLLRKWNVKNRKVSRGDIVVLKSPND-------PDKVIIKRVAALEGDI   98 (174)
T ss_pred             eeeeEEEEeEEecCcCCCccCCCcccccccEEEEEeeccccceeccCCEEEEeCCCC-------hhheeeeeeecccccE
Confidence            33446677899999999999984      8999999876555688999999999987       7899999999999999


Q ss_pred             EEEeCCEEEECCeecCccccccCCCCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          272 VEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       272 V~Ik~g~lyVNGk~l~e~yi~~p~~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      +.-.+                    +..+.+.||+|||||.|||...|+|||.|
T Consensus        99 ~~t~~--------------------~k~~~v~vpkghcWVegDn~~hs~DSntF  132 (174)
T KOG1568|consen   99 MVTED--------------------EKEEPVVVPKGHCWVEGDNQKHSYDSNTF  132 (174)
T ss_pred             eccCC--------------------CCCCceecCCCcEEEecCCcccccccCcc
Confidence            98522                    22356899999999999999999999987

>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3

Probab=99.59  E-value=9.2e-15  Score=114.24  Aligned_cols=72  Identities=50%  Similarity=0.920  Sum_probs=63.5

Q ss_pred             eEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEeCCEEEECCe
Q 020531          205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGV  284 (325)
Q Consensus       205 ~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik~g~lyVNGk  284 (325)
                      .+.|.|+||+|++..||++++++....+.++++||+|+|+.+..       .++.++|||++                  
T Consensus         2 ~~~v~g~SM~P~i~~gd~v~v~~~~~~~~~~~~GDiv~~~~~~~-------~~~~~vkRv~~------------------   56 (85)
T cd06530           2 PVVVPGGSMEPTLQPGDLVLVNKLSYGFREPKRGDVVVFKSPGD-------PGKPIIKRVIG------------------   56 (85)
T ss_pred             eeEEcCCCCcCcccCCCEEEEEEeecccCCCCCCCEEEEeCCCC-------CCCEEEEEEEE------------------
Confidence            57899999999999999999998865445799999999998752       35789999998                  


Q ss_pred             ecCccccccCCCCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          285 AQDEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       285 ~l~e~yi~~p~~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                                              ||++|||+.+|+|||+|
T Consensus        57 ------------------------~~~~gDn~~ns~d~~~~   73 (85)
T cd06530          57 ------------------------YFVLGDNRNNSLDSRYW   73 (85)
T ss_pred             ------------------------EEEeeCCCCCCCccCCc
Confidence                                    99999999999999986

4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa

>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]

Probab=99.58  E-value=1.2e-14  Score=125.39  Aligned_cols=98  Identities=33%  Similarity=0.542  Sum_probs=81.7

Q ss_pred             hhHHHHHHHHHHHHHHH--HHheeeeEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCe
Q 020531          182 SDDAKAAFTALTVSFLF--KSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDV  259 (325)
Q Consensus       182 ~~~l~~i~iai~v~lll--~~fv~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~  259 (325)
                      .+++..++.++++++++  +.|+++++.|+|+||+|||+.||+|+++|.++...+++.+|++  ..|..       ....
T Consensus         8 ~~~~~~~~~~~~~~~~i~~~~~~~~~~~V~s~SM~Ptl~~GD~v~v~k~~~~~~~~~~~~~~--~~~~~-------~~~~   78 (166)
T COG0681           8 LELISSLLIAIILALIIGVRTFVFEPVVVPSGSMEPTLNVGDRVLVKKFSYGFGKLKVPDII--VLPAV-------VEGD   78 (166)
T ss_pred             HHHHHHHHHHHHHhheeeeEEEEEEEEEECCCccccccccCCEEEEEeccccccCCccceee--ecCCC-------CCcc
Confidence            34566677777777777  8999999999999999999999999999999998899999988  32322       5678


Q ss_pred             EEEEEEEeCCCEEEEeCCEEEECCeecCcc
Q 020531          260 FIKRIVATAGDCVEVHGGKLLVNGVAQDED  289 (325)
Q Consensus       260 ~IKRVIGlPGDtV~Ik~g~lyVNGk~l~e~  289 (325)
                      ++||+++++||.|.++++.+|+ +..+.+.
T Consensus        79 ~~kr~~~~~GD~i~~~~~~~~~-~~~~~~~  107 (166)
T COG0681          79 LIKRVIGLRGDIVVFKDDRLYV-VPIIPRV  107 (166)
T ss_pred             eEEEeccCCCCEEEEECCEEEe-ecccCcc
Confidence            9999999999999999999997 3334333

>TIGR02754 sod_Ni_protease nickel-type superoxide dismutase maturation protease

Probab=99.58  E-value=1.1e-14  Score=115.39  Aligned_cols=75  Identities=35%  Similarity=0.565  Sum_probs=62.9

Q ss_pred             EECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEeCCEEEECCeec
Q 020531          207 SIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQ  286 (325)
Q Consensus       207 ~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik~g~lyVNGk~l  286 (325)
                      .|.|+||+|||++||+|++++.......+++||+|+|+.|..       +++.++|||++++                  
T Consensus         2 ~V~g~SM~P~l~~GD~vlv~~~~~~~~~~~~Gdivv~~~~~~-------~~~~~vkRv~~~~------------------   56 (90)
T TIGR02754         2 KVTGVSMSPTLPPGDRIIVVPWLKIFRVPPIGNVVVVRHPLQ-------PYGLIIKRLAAVD------------------   56 (90)
T ss_pred             EeeCCCccCccCCCCEEEEEEccccCCCCCCCeEEEEecCCC-------CcceEEEEeeEEc------------------
Confidence            588999999999999999998644335567899999998753       4678999999873                  


Q ss_pred             CccccccCCCCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          287 DEDFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       287 ~e~yi~~p~~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                                         ++++|++|||+.+|+|||+|
T Consensus        57 -------------------~~~~~l~~dN~~~~~d~~~~   76 (90)
T TIGR02754        57 -------------------DNGLFLLGDNPKASTDSRQL   76 (90)
T ss_pred             -------------------CCeEEEeCCCCCCCCccccc
Confidence                               45689999999999999985

Members of this protein family are apparent proteases encoded adjacent to the genes for a nickel-type superoxide dismutase. This family belongs to the same larger family (see Pfam model pfam00717) as signal peptidase I, an unusual serine protease suggested to have a Ser/Lys catalytic dyad.

>COG4959 TraF Type IV secretory pathway, protease TraF [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]

Probab=99.39  E-value=1.8e-12  Score=113.61  Aligned_cols=114  Identities=20%  Similarity=0.270  Sum_probs=86.0

Q ss_pred             eEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCccc----ccccC-CCCeEEEEEEEeCCCEEEEeCCEE
Q 020531          205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ----EIGFS-SGDVFIKRIVATAGDCVEVHGGKL  279 (325)
Q Consensus       205 ~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~----~~~y~-~g~~~IKRVIGlPGDtV~Ik~g~l  279 (325)
                      ..+++.+-..|   .| ...++|.+   ..+.+||+|++++|+...    +++|. ...+++|||.|+|||+|.+.++.+
T Consensus        31 ~l~~N~S~S~p---lG-lyrv~k~~---~Pvt~g~lV~v~pP~~~a~~aA~RGYLp~~~pllK~i~Alpgq~Vci~~~~I  103 (173)
T COG4959          31 GLRVNASASAP---LG-LYRVSKLS---APVTKGDLVLVCPPQRAAFLAAQRGYLPPYIPLLKRILALPGQHVCITSQGI  103 (173)
T ss_pred             ceEeccCCCcc---ee-EEEecccC---CCcccCCEEEECCCchHhHhHhhcCccccccHHHHHHhcCCCCcEEEecceE
Confidence            35565555555   22 23444432   345999999999997533    57774 467899999999999999999999


Q ss_pred             EECCeecCc----cccccCCCCCCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          280 LVNGVAQDE----DFILEPLAYEMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       280 yVNGk~l~e----~yi~~p~~~~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                      .|||+.+.-    |-..+++......-.+.++|+|+|+|..+.|||||||
T Consensus       104 ~I~G~~v~~sl~~D~~GR~lp~~~gcR~l~~~el~lL~~~~~~SfDsRYf  153 (173)
T COG4959         104 AIDGKPVAASLPVDRVGRALPRWQGCRYLAPSELLLLTDRSSTSFDSRYF  153 (173)
T ss_pred             EECCEEeeeeccccccCCcCCcccCCceecCCeEEEEeccCCccccccee
Confidence            999998753    3334455555566679999999999999999999998

>TIGR02228 sigpep_I_arch signal peptidase I, archaeal type

Probab=99.29  E-value=2.1e-11  Score=107.64  Aligned_cols=53  Identities=25%  Similarity=0.486  Sum_probs=46.0

Q ss_pred             ECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCC
Q 020531          208 IPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGD  270 (325)
Q Consensus       208 I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGD  270 (325)
                      |.|+||+||+++||++++++..  ..++++||+|+|+.|..        .+.++|||+++.++
T Consensus        36 V~g~SM~Ptl~~GD~vlv~~~~--~~~~~~GDIVvf~~~~~--------~~~iihRVi~v~~~   88 (158)
T TIGR02228        36 VLSGSMEPTFNTGDLILVTGAD--PNDIQVGDVITYKSPGF--------NTPVTHRVIEINNS   88 (158)
T ss_pred             EcCCCCcCCccCCCEEEEEecc--cCCCCCCCEEEEEECCC--------CccEEEEEEEEECC
Confidence            9999999999999999999953  36899999999998652        37899999999754

This model represents signal peptidase I from most archaea, a subunit of the eukaryotic endoplasmic reticulum signal peptidase I complex, and an apparent signal peptidase I from a small number of bacteria. It is related to but does not overlap in hits with TIGR02227, the bacterial and mitochondrial signal peptidase I.

>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification

Probab=99.18  E-value=5.6e-11  Score=89.15  Aligned_cols=57  Identities=28%  Similarity=0.540  Sum_probs=47.1

Q ss_pred             EECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          207 SIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       207 ~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      +|.|+||+|+|++||+|++++.    .+++.||+|+|..+..        +..++||+++.+|+.+.+.
T Consensus         1 ~V~GdSM~P~i~~Gd~v~v~~~----~~~~~gdivv~~~~~~--------~~~~iKrv~~~~~~~~~~~   57 (70)
T PF00717_consen    1 RVEGDSMEPTIKDGDIVLVDPS----SEPKDGDIVVVKIDGD--------EELYIKRVVGEPGGIILIS   57 (70)
T ss_dssp             EEESSTTGGTSSTTEEEEEEET----S---TTSEEEEEETTE--------ESEEEEEEEEETTEEEEE-
T ss_pred             CeECcCcccCeeCCCEEEEEEc----CCCccCeEEEEEECCc--------eeeEEEEEEEeCCCEEEEe
Confidence            4789999999999999999987    4899999999998542        1389999999999999987

; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....

>cd06462 Peptidase_S24_S26 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families

Probab=98.73  E-value=1e-07  Score=72.78  Aligned_cols=58  Identities=34%  Similarity=0.595  Sum_probs=48.1

Q ss_pred             EEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCC-CEEEEe
Q 020531          206 RSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAG-DCVEVH  275 (325)
Q Consensus       206 ~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPG-DtV~Ik  275 (325)
                      +.|.|+||+|++..||++++++..   ..++.||+|+++.+.         +..++||+...++ +.+.+.
T Consensus         3 ~~v~g~SM~P~i~~gd~v~i~~~~---~~~~~G~iv~~~~~~---------~~~~ikrl~~~~~~~~~~l~   61 (84)
T cd06462           3 LRVEGDSMEPTIPDGDLVLVDKSS---YEPKRGDIVVFRLPG---------GELTVKRVIGLPGEGHYFLL   61 (84)
T ss_pred             eEEcCCCccCcccCCCEEEEEecC---CCCcCCEEEEEEcCC---------CcEEEEEEEEECCCCEEEEE
Confidence            578999999999999999999863   248999999999742         3799999999987 555554

The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The S26 type I signal peptidase (SPase) family also includes mitochondrial inner membrane protease (IMP)-like members. SPases are essential membrane-bound proteases which function to cleave away the amino-terminal signal peptide from the translocated pre-protein, thus playing a crucial role in the tr

>cd06529 S24_LexA-like Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell

Probab=98.48  E-value=5.9e-07  Score=68.67  Aligned_cols=56  Identities=29%  Similarity=0.495  Sum_probs=48.7

Q ss_pred             EEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          206 RSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       206 ~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      +.|.|+||+|+++.||++++++.    ..++.||+++++.+          ++.++||+...+++.+.++
T Consensus         3 ~~v~g~sM~p~i~~gd~lii~~~----~~~~~g~i~~~~~~----------~~~~ikr~~~~~~~~~~L~   58 (81)
T cd06529           3 LRVKGDSMEPTIPDGDLVLVDPS----DTPRDGDIVVARLD----------GELTVKRLQRRGGGRLRLI   58 (81)
T ss_pred             EEEECCCcCCccCCCCEEEEcCC----CCCCCCCEEEEEEC----------CEEEEEEEEECCCCcEEEE
Confidence            57899999999999999999986    45999999999973          4689999999997777765

This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the repressor of genes in the cellular SOS response to DNA damage; MucA and the related UmuD proteins, which are lesion-bypass DNA polymerases, induced in response to mitogenic DNA damage; RulA, a component of the rulAB locus that confers resistance to UV, and RuvA, which is a component of the RuvABC resolvasome that catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. The LexA-like proteins contain two-domains: an N-terminal DNA binding domain and a C-terminal domain (CTD) that provides LexA dimerization as well as cleavage activity. They undergo autolysis, cleaving at an Ala-Gly or a Cys-Gly bond, separating the DNA-binding domain from the rest of the

>KOG3342 consensus Signal peptidase I [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.05  E-value=7.7e-06  Score=72.23  Aligned_cols=86  Identities=19%  Similarity=0.201  Sum_probs=57.0

Q ss_pred             hHHHHHhhhhHHHHHHHHHHHHHHHHHhe---eeeEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCccc
Q 020531          174 LSKLLNVCSDDAKAAFTALTVSFLFKSFL---AEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQ  250 (325)
Q Consensus       174 l~~~~~~l~~~l~~i~iai~v~lll~~fv---~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~  250 (325)
                      +|+.++.+.+++.++.-|..++-.+...-   -..+.|-++||+|.++.||.++......  ..++.||||+|+.+.   
T Consensus        16 ~Rq~l~Q~ln~~mivssA~MiwK~l~vvt~seSPiVVVLSgSMePaF~RGDlLfL~N~~~--~p~~vGdivVf~veg---   90 (180)
T KOG3342|consen   16 IRQLLYQVLNFAMIVSSAYMIWKGLMVVTGSESPIVVVLSGSMEPAFHRGDLLFLTNRNE--DPIRVGDIVVFKVEG---   90 (180)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhheeeeCCCCCEEEEEcCCcCcccccccEEEEecCCC--CcceeccEEEEEECC---
Confidence            34444444555555555555444432211   1246788999999999999999875431  346789999999864   


Q ss_pred             ccccCCCCeEEEEEEEeCC
Q 020531          251 EIGFSSGDVFIKRIVATAG  269 (325)
Q Consensus       251 ~~~y~~g~~~IKRVIGlPG  269 (325)
                           +..++++||+-+-+
T Consensus        91 -----R~IPiVHRviK~he  104 (180)
T KOG3342|consen   91 -----REIPIVHRVIKQHE  104 (180)
T ss_pred             -----ccCchhHHHHHHhc
Confidence                 45688999986533

>COG2932 Predicted transcriptional regulator [Transcription]

Probab=97.99  E-value=1.6e-05  Score=72.51  Aligned_cols=58  Identities=21%  Similarity=0.414  Sum_probs=48.3

Q ss_pred             eEEECCCCCCCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          205 PRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       205 ~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      ...|.|+||+|++++||.++|+.-    .+..+||.|++...         .++.+|||+.-.+|-.+.+.
T Consensus       125 ~i~V~GDSMeP~~~~Gd~ilVd~~----~~~~~gd~v~v~~~---------g~~~~VK~l~~~~~~~~~l~  182 (214)
T COG2932         125 ALRVTGDSMEPTYEDGDTLLVDPG----VNTRRGDRVYVETD---------GGELYVKKLQREPGGLLRLV  182 (214)
T ss_pred             EEEEeCCcccccccCCCEEEECCC----CceeeCCEEEEEEe---------CCeEEEEEEEEecCCeEEEE
Confidence            357899999999999999999886    46788997766652         36899999999999988653

>PRK00215 LexA repressor; Validated

Probab=97.73  E-value=0.00019  Score=64.86  Aligned_cols=56  Identities=18%  Similarity=0.249  Sum_probs=44.2

Q ss_pred             eEEECCCCCC-CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       205 ~~~I~g~SM~-PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      .++|.|+||. |++.+||+|++++.    .+++.||+|++..          +++..+||+.-. ++.+.+.
T Consensus       120 ~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivv~~~----------~~~~~vKrl~~~-~~~~~L~  176 (205)
T PRK00215        120 LLRVRGDSMIDAGILDGDLVIVRKQ----QTARNGQIVVALI----------DDEATVKRFRRE-GGHIRLE  176 (205)
T ss_pred             EEEEccCCCCCCCcCCCCEEEEeCC----CCCCCCCEEEEEE----------CCEEEEEEEEEe-CCEEEEE
Confidence            4679999995 79999999999974    4678999999986          346899999865 4444443

>TIGR00498 lexA SOS regulatory protein LexA

Probab=97.58  E-value=0.00035  Score=62.82  Aligned_cols=56  Identities=25%  Similarity=0.281  Sum_probs=44.9

Q ss_pred             eeEEECCCCCC-CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEE
Q 020531          204 EPRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV  274 (325)
Q Consensus       204 ~~~~I~g~SM~-PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~I  274 (325)
                      ..+.|.|+||. |.+.+||++++++.    .+++.||+|++..          +++..+||+.-. |+.+.+
T Consensus       112 f~~~V~GdSM~~~~i~~Gd~v~v~~~----~~~~~G~ivvv~~----------~~~~~vKrl~~~-~~~i~L  168 (199)
T TIGR00498       112 FLLKVMGDSMVDAGICDGDLLIVRSQ----KDARNGEIVAAMI----------DGEVTVKRFYKD-GTKVEL  168 (199)
T ss_pred             EEEEecCCCCCCCCCCCCCEEEEecC----CCCCCCCEEEEEE----------CCEEEEEEEEEE-CCEEEE
Confidence            35689999996 58999999999875    4789999999987          367899998754 445544

LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.

>PRK10276 DNA polymerase V subunit UmuD; Provisional

Probab=97.47  E-value=0.00076  Score=57.93  Aligned_cols=49  Identities=20%  Similarity=0.284  Sum_probs=40.7

Q ss_pred             eEEECCCCCC-CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEe
Q 020531          205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVAT  267 (325)
Q Consensus       205 ~~~I~g~SM~-PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGl  267 (325)
                      ..+|.|+||. |++.+||++++++-    .+++.||+|++..          +++..+||+.-.
T Consensus        53 ~l~V~GdSM~~~~I~~GD~liVd~~----~~~~~Gdivv~~~----------~g~~~vKrl~~~  102 (139)
T PRK10276         53 FVKASGDSMIDAGISDGDLLIVDSA----ITASHGDIVIAAV----------DGEFTVKKLQLR  102 (139)
T ss_pred             EEEEecCCCCCCCCCCCCEEEEECC----CCCCCCCEEEEEE----------CCEEEEEEEEEC
Confidence            3689999998 68999999999975    3678999999875          356889999854

>PRK12423 LexA repressor; Provisional

Probab=97.42  E-value=0.00078  Score=61.33  Aligned_cols=56  Identities=25%  Similarity=0.325  Sum_probs=44.8

Q ss_pred             eEEECCCCCC-CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          205 PRSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       205 ~~~I~g~SM~-PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      ...|.|+||. |+|.+||+|+|++.    .+++.||+|++..          +++..+||+.-. ++.+.+.
T Consensus       116 ~l~V~GdSM~~~~i~~Gd~viv~~~----~~~~~Gdivv~~~----------~~~~~vKrl~~~-~~~~~L~  172 (202)
T PRK12423        116 LLQVQGDSMIDDGILDGDLVGVHRS----PEARDGQIVVARL----------DGEVTIKRLERS-GDRIRLL  172 (202)
T ss_pred             EEEEecCcCCCCCcCCCCEEEEeCC----CcCCCCCEEEEEE----------CCEEEEEEEEEe-CCEEEEE
Confidence            3589999997 79999999999975    4788999999986          356899999855 4555553

>COG1974 LexA SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]

Probab=94.85  E-value=0.23  Score=45.89  Aligned_cols=55  Identities=20%  Similarity=0.288  Sum_probs=42.8

Q ss_pred             EEECCCCCC-CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEE
Q 020531          206 RSIPSASMN-PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV  274 (325)
Q Consensus       206 ~~I~g~SM~-PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~I  274 (325)
                      .+|.|+||. +.+.+||.|+|++.    .+.+.||||+-..++         ++.-+||..-. |+.|.+
T Consensus       115 L~V~GdSM~~~gi~dGDlvvV~~~----~~a~~GdiVvA~i~g---------~e~TvKrl~~~-g~~i~L  170 (201)
T COG1974         115 LRVSGDSMIDAGILDGDLVVVDPT----EDAENGDIVVALIDG---------EEATVKRLYRD-GNQILL  170 (201)
T ss_pred             EEecCCccccCcCCCCCEEEEcCC----CCCCCCCEEEEEcCC---------CcEEEEEEEEe-CCEEEE
Confidence            578999997 57778999999986    689999999998742         44789998743 444444

>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]

Probab=91.91  E-value=0.24  Score=42.45  Aligned_cols=29  Identities=28%  Similarity=0.485  Sum_probs=24.0

Q ss_pred             CCeEEEEEEEeCCCEEEEeCCEEEECCee
Q 020531          257 GDVFIKRIVATAGDCVEVHGGKLLVNGVA  285 (325)
Q Consensus       257 g~~~IKRVIGlPGDtV~Ik~g~lyVNGk~  285 (325)
                      ...++||++++|||.+...+..+++||+.
T Consensus       137 ~~~~~~~~~~~~gd~~~~~~~~~~~~g~~  165 (166)
T COG0681         137 KKDYIKRVIGLPGDNILYTDDDLPINGKP  165 (166)
T ss_pred             ccccccceEEeeccceeeccCceeecCCC
Confidence            36699999999999999986448888764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	325
1kn9_A	249	Crystal Structure Of A Bacterial Signal Peptidase A		1e-06
1t7d_A	250	Crystal Structure Of Escherichia Coli Type I Signal		1e-06
1b12_A	248	Crystal Structure Of Type 1 Signal Peptidase From E		2e-06

>pdb|1KN9|A Chain A, Crystal Structure Of A Bacterial Signal Peptidase Apo- Enzyme, Implications For Signal Peptide Binding And The Ser-Lys Dyad Mechanism. Length = 249

Iteration: 1
 Score = 50.8 bits (120), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/90 (38%), Positives = 44/90 (48%), Gaps = 23/90 (25%)
Query: 197 LFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFK------------RPEVSDIVIFR 244
           + +SF+ EP  IPS SM PTL +GD IL EK +Y  K             P+  DIV+F+
Sbjct: 1   MVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFK 60
Query: 245 AP--PILQEIGFSSGDVFIKRIVATAGDCV 272
            P  P L          +IKR V   GD V
Sbjct: 61  YPEDPKLD---------YIKRAVGLPGDKV 81

>pdb|1T7D|A Chain A, Crystal Structure Of Escherichia Coli Type I Signal Peptidase In Complex With A Lipopeptide Inhibitor Length = 250

Iteration: 1
 Score = 50.4 bits (119), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/91 (38%), Positives = 44/91 (48%), Gaps = 23/91 (25%)
Query: 196 FLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFK------------RPEVSDIVIF 243
            + +SF+ EP  IPS SM PTL +GD IL EK +Y  K             P+  DIV+F
Sbjct: 1   MIVRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVF 60
Query: 244 RAP--PILQEIGFSSGDVFIKRIVATAGDCV 272
           + P  P L          +IKR V   GD V
Sbjct: 61  KYPEDPKLD---------YIKRAVGLPGDKV 82

>pdb|1B12|A Chain A, Crystal Structure Of Type 1 Signal Peptidase From Escherichia Coli In Complex With A Beta-Lactam Inhibitor Length = 248

Iteration: 1
 Score = 50.1 bits (118), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 35/88 (39%), Positives = 43/88 (48%), Gaps = 23/88 (26%)
Query: 199 KSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFK------------RPEVSDIVIFRAP 246
           +SF+ EP  IPS SM PTL +GD IL EK +Y  K             P+  DIV+F+ P
Sbjct: 2   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 61
Query: 247 --PILQEIGFSSGDVFIKRIVATAGDCV 272
             P L          +IKR V   GD V
Sbjct: 62  EDPKLD---------YIKRAVGLPGDKV 80

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	325
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	3e-17
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	3e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-04

>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptid processing, protein translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP: b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A* Length = 248

 Score = 78.8 bits (194), Expect = 3e-17
 Identities = 32/103 (31%), Positives = 41/103 (39%), Gaps = 19/103 (18%)

Query: 199 KSFLAEPRSIPSASMNPTLDVGDRILAEKVSY------------FFKRPEVSDIVIFRAP 246
           +SF+ EP  IPS SM PTL +GD IL EK +Y                P+  DIV+F+ P
Sbjct: 2   RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYP 61

Query: 247 PILQEIGFSSGDVFIKRIVATAGDCVEVHGGKLLVNGVAQDED 289
                        +IKR V   GD V        +        
Sbjct: 62  E-------DPKLDYIKRAVGLPGDKVTYDPVSKELTIQPGCSS 97

>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptid processing, protein translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP: b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A* Length = 248

 Score = 49.9 bits (119), Expect = 3e-07
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 298 EMDPVVVPEGYVFVLGDNRNNSFDS 322
           ++   +VP G  F++GDNR+NS DS
Sbjct: 182 QLATWIVPPGQYFMMGDNRDNSADS 206

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 40.6 bits (94), Expect = 6e-04
 Identities = 16/116 (13%), Positives = 35/116 (30%), Gaps = 26/116 (22%)

Query: 196 FLFKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPE-VSDIVIFRAPPILQEIGF 254
            LF + L++   +    +   L +  + L   +    ++P  ++ + I +   +     +
Sbjct: 66  RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL-----Y 120

Query: 255 SSGDVFIKRIV---------------ATAGDCVEVHG----GK-LLVNGVAQDEDF 290
           +   VF K  V                     V + G    GK  +   V      
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKV 176

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	325
1b12_A	248	Signal peptidase I; serine proteinase, serine-depe	99.97
1umu_A	116	UMUD'; induced mutagenesis, SOS mutagenesis, DNA r	98.49
1kca_A	109	Repressor protein CI; gene regulation, DNA-binding	98.36
1jhf_A	202	LEXA repressor; LEXA SOS repressor, hydrolase; 1.8	98.33
2hnf_A	133	Repressor protein CI101-229DM-K192A; viral protein	98.22
3k2z_A	196	LEXA repressor; winged helix-turn-helix, SOS syste	98.04
3bdn_A	236	Lambda repressor; repressor, allostery; HET: DNA;	97.7
2fjr_A	189	Repressor protein CI; genetic switch, regulation,	88.15

>1b12_A Signal peptidase I; serine proteinase, serine-dependant hydrolase, signal peptid processing, protein translocation; HET: 1PN; 1.95A {Escherichia coli} SCOP: b.87.1.2 PDB: 3s04_A* 1t7d_A* 3iiq_A* 1kn9_A*

Probab=99.97  E-value=7.6e-31  Score=242.54  Aligned_cols=121  Identities=40%  Similarity=0.636  Sum_probs=100.6

Q ss_pred             HHHheeeeEEECCCCCCCCCCCCCEEEEEeccccC------------CCCccccEEEEecCCcccccccCCCCeEEEEEE
Q 020531          198 FKSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFF------------KRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIV  265 (325)
Q Consensus       198 l~~fv~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~------------~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVI  265 (325)
                      ++.|+++++.|+|+||+|||++||+|+|+|.+|++            .++++||||+|+.|.+       ++..+||||+
T Consensus         1 ir~fv~~~~~v~g~SM~Ptl~~GD~vlv~k~~yg~r~P~~~~~l~~~~~~~rGDIvvf~~p~~-------~~~~~iKRVi   73 (248)
T 1b12_A            1 VRSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPED-------PKLDYIKRAV   73 (248)
T ss_dssp             -CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTC-------TTSEEEEEEE
T ss_pred             CeEEEEEEEEeccccccccccCCCEEEEEecccCcccccccccccccCCCCCCcEEEEEeCCC-------CCceEEEEEE
Confidence            45789999999999999999999999999998753            6899999999998864       4678999999


Q ss_pred             EeCCCEEEEeCC--EEEECC-----------eecCccccc---------------------------------------c
Q 020531          266 ATAGDCVEVHGG--KLLVNG-----------VAQDEDFIL---------------------------------------E  293 (325)
Q Consensus       266 GlPGDtV~Ik~g--~lyVNG-----------k~l~e~yi~---------------------------------------~  293 (325)
                      |+|||+|+++++  .|||||           +.+++.++.                                       +
T Consensus        74 glpGD~v~i~~~~~~l~ING~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~~~~~~e  153 (248)
T 1b12_A           74 GLPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFSRRNGGEATSGFFEVPKNETKENGIRLSERKE  153 (248)
T ss_dssp             ECTTCEEEEETTTTEEEEETTCCSSCCCCCCCCEEECCCEEEEEEEEEECGGGSCEEEEEEECCTTCCCTTEEEEEEEEE
T ss_pred             eeCCCEEEEEcCceEEEECCccccccccccceeeeeeccccccccccccccccccccccccccccccccccchhhhhHHh
Confidence            999999999999  999999           655433210                                       0


Q ss_pred             ------------CC----C--C------CCCcEEecCCcEEEEcCCCCCCCCCCCC
Q 020531          294 ------------PL----A--Y------EMDPVVVPEGYVFVLGDNRNNSFDSHNW  325 (325)
Q Consensus       294 ------------p~----~--~------~~~~~~VP~g~yFVLGDNr~nS~DSRyf  325 (325)
                                  +.    .  +      ...+++||+||||||||||++|.|||||
T Consensus       154 ~l~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~VP~g~yFvmGDNR~nS~DSR~~  209 (248)
T 1b12_A          154 TLGDVTHRILTVPIAQDQVGMYYQQPGQQLATWIVPPGQYFMMGDNRDNSADSRYW  209 (248)
T ss_dssp             EETTEEEEEEECTTCCCCGGGSCCCTTCCTTEEECCTTEEEEECSBTTSCCCHHHH
T ss_pred             hhcCccceeEecCCccccccchhcccccccccEEeCCCcEEEecCCCcccCCCCcc
Confidence                        00    0  1      1236799999999999999999999997

>1umu_A UMUD'; induced mutagenesis, SOS mutagenesis, DNA repair, beta- lactamase cleavage reaction, LEXA repressor, lambda CI; 2.50A {Escherichia coli} SCOP: b.87.1.1 PDB: 1i4v_A 1ay9_A

Probab=98.49  E-value=2.4e-07  Score=75.37  Aligned_cols=50  Identities=20%  Similarity=0.274  Sum_probs=43.6

Q ss_pred             eEEECCCCCCC-CCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeC
Q 020531          205 PRSIPSASMNP-TLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATA  268 (325)
Q Consensus       205 ~~~I~g~SM~P-TL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlP  268 (325)
                      .+.|.|+||+| +|++||+|++++.    .+++.||+|++..          +++.++||++..+
T Consensus        29 ~~~v~GdSM~p~~i~~Gd~v~vd~~----~~~~~gdivv~~~----------~~~~~vKr~~~~~   79 (116)
T 1umu_A           29 FVKASGDSMIDGGISDGDLLIVDSA----ITASHGDIVIAAV----------DGEFTVKKLQLRP   79 (116)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEETT----SCCCTTCEEEEEE----------TTEEEEEEEECSS
T ss_pred             EEEECCCCcCCCCCCCCCEEEEEcC----CCCCCCCEEEEEE----------CCEEEEEEEEeCC
Confidence            46899999999 8999999999986    4689999999986          3568999999875

>1kca_A Repressor protein CI; gene regulation, DNA-binding, lambda repressor, protein oligomerization, DNA-looping; 2.91A {Enterobacteria phage lambda} SCOP: b.87.1.1

Probab=98.36  E-value=1.1e-06  Score=71.10  Aligned_cols=52  Identities=23%  Similarity=0.319  Sum_probs=44.1

Q ss_pred             eEEECCCCCC------CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCC
Q 020531          205 PRSIPSASMN------PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAG  269 (325)
Q Consensus       205 ~~~I~g~SM~------PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPG  269 (325)
                      .++|.|+||+      |+|++||+|++++.    .+++.||+|++..+.         ++.++||++..+|
T Consensus        15 ~~~V~GdSM~~~~g~~p~i~~Gd~v~Vd~~----~~~~~Gdivv~~~~~---------~~~~vKrl~~~~~   72 (109)
T 1kca_A           15 WLEVEGNSMTAPTGSKPSFPDGMLILVDPE----QAVEPGDFCIARLGG---------DEFTFKKLIRDSG   72 (109)
T ss_dssp             EEECCSSTTCCCTTCSSCCCTTCEEEEETT----SCCCTTCEEEEECST---------TCEEEEEEEEETT
T ss_pred             EEEEeCcCcCCCCCCCCeeCCCCEEEEecC----CcCCCCCEEEEEECC---------CeEEEEEEEEeCC
Confidence            4689999999      99999999999986    469999999998732         4789999997644

>1jhf_A LEXA repressor; LEXA SOS repressor, hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.2 b.87.1.1 PDB: 1jhh_A 3jso_A* 3jsp_A* 3k3r_E* 1jhc_A 1jhe_A 1lea_A 1leb_A

Probab=98.33  E-value=2.3e-06  Score=75.23  Aligned_cols=56  Identities=23%  Similarity=0.331  Sum_probs=48.1

Q ss_pred             eEEECCCCCCCC-CCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          205 PRSIPSASMNPT-LDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       205 ~~~I~g~SM~PT-L~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      .+.|.|+||+|+ |.+||+|+|++.    .+++.||+|++..          +++.+|||+. .+|+.+.+.
T Consensus       112 ~~~v~GdSM~p~~i~~Gd~v~vd~~----~~~~~G~i~v~~~----------~~~~~vKrl~-~~~~~~~l~  168 (202)
T 1jhf_A          112 LLRVSGMSMKDIGIMDGDLLAVHKT----QDVRNGQVVVARI----------DDEVTVKRLK-KQGNKVELL  168 (202)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTSEEEEEE----------TTEEEEEEEE-EETTEEEEE
T ss_pred             EEEECCCCCCCCCCCCCCEEEEecc----CCcCCCeEEEEEE----------CCEEEEEEEE-EeCCEEEEE
Confidence            467899999999 999999999885    4689999999986          3578999999 688887765

>2hnf_A Repressor protein CI101-229DM-K192A; viral protein; 1.80A {Escherichia coli} PDB: 2ho0_A 1f39_A

Probab=98.22  E-value=2.7e-06  Score=70.85  Aligned_cols=56  Identities=20%  Similarity=0.236  Sum_probs=45.3

Q ss_pred             eEEECCCCCC------CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEE
Q 020531          205 PRSIPSASMN------PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV  274 (325)
Q Consensus       205 ~~~I~g~SM~------PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~I  274 (325)
                      .++|.|+||+      |+|++||+|+|++.    .+++.||+|++..+         .++.++||++-.+| .+.+
T Consensus        46 ~~~V~GdSM~~~~g~~p~i~~Gd~v~vd~~----~~~~~Gdivv~~~~---------~~~~~vKrl~~~~~-~~~L  107 (133)
T 2hnf_A           46 WLEVEGNSMTTPTGSKTSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFAKLIRDSG-QVFL  107 (133)
T ss_dssp             EEECCSSTTCCC---CCCCCTTCEEEEETT----SCCCTTSEEEEEET---------TTEEEEEEEEEETT-EEEE
T ss_pred             EEEEeCCCcCCCcCCCCccCCCCEEEEccC----CCCCCCCEEEEEEC---------CCEEEEEEEEEeCC-eEEE
Confidence            4678999999      99999999999985    47899999999863         24689999996544 4443

>3k2z_A LEXA repressor; winged helix-turn-helix, SOS system, autoca cleavage, DNA damage, DNA repair, DNA replication, DNA-BIND hydrolase; 1.37A {Thermotoga maritima}

Probab=98.04  E-value=2e-05  Score=69.43  Aligned_cols=55  Identities=22%  Similarity=0.309  Sum_probs=44.5

Q ss_pred             eEEECCCCC-CCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEE
Q 020531          205 PRSIPSASM-NPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV  274 (325)
Q Consensus       205 ~~~I~g~SM-~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~I  274 (325)
                      ...|.|+|| +|++.+||+|+|++.    .+++.||+|++..          +++..+||+.-.+| .+.+
T Consensus       111 ~l~v~GdSM~~p~i~~GD~viv~~~----~~~~~G~ivv~~~----------~~~~~vKr~~~~~~-~~~L  166 (196)
T 3k2z_A          111 LLKVKGESMIEEHICDGDLVLVRRQ----DWAQNGDIVAAMV----------DGEVTLAKFYQRGD-TVEL  166 (196)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTCEEEEEE----------TTEEEEEEEEEETT-EEEE
T ss_pred             EEEEeCCCcCCCCCCCCCEEEEecc----CcCCCCCEEEEEE----------CCcEEEEEEEEECC-EEEE
Confidence            468999999 699999999999986    4789999999986          35789999976533 4433

>3bdn_A Lambda repressor; repressor, allostery; HET: DNA; 3.91A {Enterobacteria phage lambda}

Probab=97.70  E-value=4.6e-05  Score=67.84  Aligned_cols=55  Identities=22%  Similarity=0.313  Sum_probs=45.3

Q ss_pred             eEEECCCCCC------CCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEE
Q 020531          205 PRSIPSASMN------PTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCV  272 (325)
Q Consensus       205 ~~~I~g~SM~------PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV  272 (325)
                      .+.|.|+||+      |+|.+||+|+|++.    .+++.||+|++...         .+..+|||+.-.+|..+
T Consensus       142 ~l~V~GdSM~~~~g~~P~i~~Gd~v~vd~~----~~~~~g~ivv~~~~---------~~~~~vKrl~~~~~~~~  202 (236)
T 3bdn_A          142 WLEVEGNSMTAPTGSKPSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFKKLIRGSGQVF  202 (236)
T ss_dssp             EEECCSSSSCCCSSCSSCCCSSCEEEECCS----SCCCTTSEEEEEST---------TTCCCCEEEECCSSSCE
T ss_pred             EEEEeCCCcCCCCCCCCcCCCCCEEEECCC----CCCCCCcEEEEEEC---------CCeEEEEEEEEcCCcEE
Confidence            3578999999      99999999999875    37899999999863         25688999997665544

>2fjr_A Repressor protein CI; genetic switch, regulation, cooperativity, transcription regulator; 1.95A {Enterobacteria phage 186} PDB: 2fkd_A

Probab=88.15  E-value=0.7  Score=39.11  Aligned_cols=43  Identities=14%  Similarity=0.244  Sum_probs=35.2

Q ss_pred             CCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEEe
Q 020531          218 DVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEVH  275 (325)
Q Consensus       218 ~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~Ik  275 (325)
                      .+||+|+|++.     ++..|+++++..          +++.+|||+.-.+|+.+.+.
T Consensus       120 ~~Gd~v~Vd~~-----~~~~g~i~vv~~----------~g~~~vKrl~~~~~~~i~L~  162 (189)
T 2fjr_A          120 SEGKIYFVDKQ-----ASLSDGLWLVDI----------KGAISIRELTKLPGRKLHVA  162 (189)
T ss_dssp             ETTEEEEEETT-----CCSCSEEEEEEE----------TTEEEEEEEEEETTTEEEEE
T ss_pred             eCCcEEEEEcC-----CccCCCEEEEEe----------CCeEEEEEEEECCCCEEEEE
Confidence            78999999874     366799999986          45789999998888887764

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	325
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	5e-18
d1b12a_	247	b.87.1.2 (A:) Type 1 signal peptidase {Escherichia	2e-05

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]} Length = 247

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

 Score = 79.6 bits (195), Expect = 5e-18
 Identities = 35/124 (28%), Positives = 43/124 (34%), Gaps = 5/124 (4%)

Query: 200 SFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSS--- 256
           SF+ EP  IPS SM PTL +GD IL EK +Y  K P     +I    P   +I       
Sbjct: 2   SFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPE 61

Query: 257 --GDVFIKRIVATAGDCVEVHGGKLLVNGVAQDEDFILEPLAYEMDPVVVPEGYVFVLGD 314
                +IKR V   GD V        +              A  +    V          
Sbjct: 62  DPKLDYIKRAVGLPGDKVTYDPVSKELTIQPGCSSGQACENALPVTYSNVEPSDFVQTFS 121

Query: 315 NRNN 318
            RN 
Sbjct: 122 RRNG 125

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]} Length = 247

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

 Score = 42.6 bits (99), Expect = 2e-05
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 297 YEMDPVVVPEGYVFVLGDNRNNSFDSHNW 325
            ++   +VP G  F++GDNR+NS DS  W
Sbjct: 180 QQLATWIVPPGQYFMMGDNRDNSADSRYW 208

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	325
d1b12a_	247	Type 1 signal peptidase {Escherichia coli [TaxId:	99.95
d1jhfa2	126	LexA C-terminal domain {Escherichia coli [TaxId: 5	98.03
d1f39a_	101	lambda repressor C-terminal domain {Bacteriophage	97.9
d1umua_	105	UmuD' {Escherichia coli [TaxId: 562]}	97.75

>d1b12a_ b.87.1.2 (A:) Type 1 signal peptidase {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: Type 1 signal peptidase
domain: Type 1 signal peptidase
species: Escherichia coli [TaxId: 562]

Probab=99.95  E-value=1.5e-29  Score=228.95  Aligned_cols=77  Identities=43%  Similarity=0.570  Sum_probs=67.3

Q ss_pred             HHheeeeEEECCCCCCCCCCCCCEEEEEeccccCCC------------CccccEEEEecCCcccccccCCCCeEEEEEEE
Q 020531          199 KSFLAEPRSIPSASMNPTLDVGDRILAEKVSYFFKR------------PEVSDIVIFRAPPILQEIGFSSGDVFIKRIVA  266 (325)
Q Consensus       199 ~~fv~~~~~I~g~SM~PTL~~GD~VlV~K~s~~~~~------------pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIG  266 (325)
                      +.|+++++.||++||+|||+.||+|+|+|++|+++.            +++||+|+|+.|.+       ....+||||+|
T Consensus         1 R~f~~~~f~IPs~SMePTL~~GD~l~V~K~~Yg~r~P~~~~~~~~~~~~~rgdivvf~~p~~-------~~~~~ikR~ig   73 (247)
T d1b12a_           1 RSFIYEPFQIPSGSMMPTLLIGDFILVEKFAYGIKDPIYQKTLIETGHPKRGDIVVFKYPED-------PKLDYIKRAVG   73 (247)
T ss_dssp             CBCCEEEEECCSCTTTTTSCTTEEEEEEESEEEEECGGGSCEEEEECCCCTTCEEEEECTTC-------TTSEEEEEEEE
T ss_pred             CEEEEEEEEeCcccccchhccCCEEEEEccccCccCCccCcccccccCcccCceeeecCCCC-------CCccccccccC
Confidence            358999999999999999999999999999998764            49999999999875       56789999999


Q ss_pred             eCCCEEEEeCCEEEEC
Q 020531          267 TAGDCVEVHGGKLLVN  282 (325)
Q Consensus       267 lPGDtV~Ik~g~lyVN  282 (325)
                      +|||+|.+.+...++|
T Consensus        74 ~pGD~i~~~~~~~~i~   89 (247)
T d1b12a_          74 LPGDKVTYDPVSKELT   89 (247)
T ss_dssp             CTTCEEEEETTTTEEE
T ss_pred             CCCCeEEEecccceEE
Confidence            9999999985444443

>d1jhfa2 b.87.1.1 (A:73-198) LexA C-terminal domain {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: LexA C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=6.3e-06  Score=66.39  Aligned_cols=55  Identities=22%  Similarity=0.309  Sum_probs=45.5

Q ss_pred             eEEECCCCCCCC-CCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCCEEEE
Q 020531          205 PRSIPSASMNPT-LDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGDCVEV  274 (325)
Q Consensus       205 ~~~I~g~SM~PT-L~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGDtV~I  274 (325)
                      ..+|.|+||+|+ ++.||++++++.    .+++.||+|++..          +++..+||+.-.+ +.+.+
T Consensus        40 ~lrV~GdSM~~~~i~~gd~viv~~~----~~~~~G~ivv~~~----------~ge~~vKrl~~~~-~~~~L   95 (126)
T d1jhfa2          40 LLRVSGMSMKDIGIMDGDLLAVHKT----QDVRNGQVVVARI----------DDEVTVKRLKKQG-NKVEL   95 (126)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEEEC----SCCCTTSEEEEEE----------TTEEEEEEEEEET-TEEEE
T ss_pred             EEEEcCCcccCcccCCCEEEEEecc----ccccCCCEEEEEE----------CCEEEEEEEEEcC-CEEEE
Confidence            358999999998 999999999985    5899999999987          4678999998653 44443

>d1f39a_ b.87.1.1 (A:) lambda repressor C-terminal domain {Bacteriophage lambda [TaxId: 10710]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: lambda repressor C-terminal domain
species: Bacteriophage lambda [TaxId: 10710]

Probab=97.90  E-value=1.9e-05  Score=61.32  Aligned_cols=52  Identities=23%  Similarity=0.371  Sum_probs=42.4

Q ss_pred             EEECCCCC------CCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEEEeCCC
Q 020531          206 RSIPSASM------NPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIVATAGD  270 (325)
Q Consensus       206 ~~I~g~SM------~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVIGlPGD  270 (325)
                      .+|.|+||      +|+|++||+|+|++-    .+++.||+|++...         .+..++||+.-.+|.
T Consensus         8 l~V~GdSM~~~~~~ep~i~~Gd~viVd~~----~~~~~g~ivva~~~---------~~~~~vKr~~~~~~~   65 (101)
T d1f39a_           8 LEVEGNSMTAPTGSKPSFPDGMLILVDPE----QAVEPGDFCIARLG---------GDEFTFKKLIRDSGQ   65 (101)
T ss_dssp             EECCSSTTCCCTTCSSCCCTTCEEEEETT----SCCCTTCEEEEECT---------TSCEEEEEEEEETTE
T ss_pred             EEEeCCccCCCcccCCCcCCCCEEEEEec----CccCCCCEEEEEEC---------CCeEEEEEEEEcCCE
Confidence            57999999      899999999999975    57899999988763         345789999865443

>d1umua_ b.87.1.1 (A:) UmuD' {Escherichia coli [TaxId: 562]}

class: All beta proteins
fold: LexA/Signal peptidase
superfamily: LexA/Signal peptidase
family: LexA-related
domain: UmuD'
species: Escherichia coli [TaxId: 562]

Probab=97.75  E-value=8e-05  Score=58.38  Aligned_cols=47  Identities=21%  Similarity=0.328  Sum_probs=41.2

Q ss_pred             eEEECCCCC-CCCCCCCCEEEEEeccccCCCCccccEEEEecCCcccccccCCCCeEEEEEE
Q 020531          205 PRSIPSASM-NPTLDVGDRILAEKVSYFFKRPEVSDIVIFRAPPILQEIGFSSGDVFIKRIV  265 (325)
Q Consensus       205 ~~~I~g~SM-~PTL~~GD~VlV~K~s~~~~~pkrGDIVVF~~P~~~~~~~y~~g~~~IKRVI  265 (325)
                      ..+|.|+|| .|.+.+||++++++.    .+++.||+|++..          +++..+||+.
T Consensus        22 ~~rV~GdSM~~~gI~~GDlliVd~~----~~~~~g~ivva~i----------~ge~~vKrl~   69 (105)
T d1umua_          22 FVKASGDSMIDGGISDGDLLIVDSA----ITASHGDIVIAAV----------DGEFTVKKLQ   69 (105)
T ss_dssp             EEECCSSTTGGGTCCTTCEEEEETT----SCCCTTCEEEEEE----------TTEEEEEEEE
T ss_pred             EEEEcCCccccCccCCCCEEEEEcc----cccccCcEEEEEE----------CCEEEEEEEE
Confidence            468999999 588999999999986    5899999999997          4678999986